=>> Building biology/mafft build started at Wed Mar 11 15:02:04 EDT 2026 port directory: /usr/ports/biology/mafft package name: mafft-7.267_1 building for: FreeBSD pkg.DaveG.ca 14.4-RELEASE FreeBSD 14.4-RELEASE 1404000 amd64 maintained by: cartwright@asu.edu Makefile datestamp: -rw-r--r-- 1 root wheel 1028 Aug 27 2024 /usr/ports/biology/mafft/Makefile Ports top last git commit: 26b198eb3ee3 Ports top unclean checkout: no Port dir last git commit: f5db6921ff60 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1404000 Job Id: 06 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1404000 UNAME_v=FreeBSD 14.4-RELEASE 1404000 UNAME_r=14.4-RELEASE BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/freebsd_14_4_x64-HEAD-ALL/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=tmux-256color OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/freebsd_14_4_x64-HEAD-ALL/06/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_14_4_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_14_4_x64-HEAD-ALL/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for mafft-7.267_1: DOCS=on: Build and/or install documentation EXAMPLES=on: Build and/or install examples ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- cartwright@asu.edu --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=/usr/local/bin/gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/mafft/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/mafft/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/mafft/work/.cache HOME=/wrkdirs/usr/ports/biology/mafft/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/mafft/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/mafft/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- INSTALL_LIB="install -s -m 0644" INSTALL_DATA="install -m 0644" INSTALL_PROGRAM="install -s -m 555" INSTALL_SCRIPT="install -m 555" MKDIR="/bin/mkdir -p" LN="/bin/ln" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/mafft/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/mafft/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/mafft/work/.cache HOME=/wrkdirs/usr/ports/biology/mafft/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/mafft/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/mafft/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PORTDOCS="" PORTEXAMPLES="" OSREL=14.4 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/mafft" EXAMPLESDIR="share/examples/mafft" DATADIR="share/mafft" WWWDIR="www/mafft" ETCDIR="etc/mafft" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/mafft DOCSDIR=/usr/local/share/doc/mafft EXAMPLESDIR=/usr/local/share/examples/mafft WWWDIR=/usr/local/www/mafft ETCDIR=/usr/local/etc/mafft --End SUB_LIST-- ---Begin make.conf--- DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 WITH_CCACHE_BUILD=yes CCACHE_DIR=/root/.ccache #### Misc Poudriere #### .include "/etc/make.conf.ports_env" GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 8192 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited pipebuf (-y) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> mafft-7.267_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.6.2.pkg [pkg.DaveG.ca] Installing pkg-2.6.2... [pkg.DaveG.ca] Extracting pkg-2.6.2: .......... done ===> mafft-7.267_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of mafft-7.267_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by mafft-7.267_1 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by mafft-7.267_1 for building => SHA256 Checksum OK for mafft-7.267-without-extensions-src.tgz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by mafft-7.267_1 for building ===> Extracting for mafft-7.267_1 => SHA256 Checksum OK for mafft-7.267-without-extensions-src.tgz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for mafft-7.267_1 ===> Applying FreeBSD patches for mafft-7.267_1 from /usr/ports/biology/mafft/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> mafft-7.267_1 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [pkg.DaveG.ca] Installing gmake-4.4.1... [pkg.DaveG.ca] `-- Installing gettext-runtime-0.26... [pkg.DaveG.ca] | `-- Installing indexinfo-0.3.1_1... [pkg.DaveG.ca] | `-- Extracting indexinfo-0.3.1_1: . done [pkg.DaveG.ca] `-- Extracting gettext-runtime-0.26: .......... done [pkg.DaveG.ca] Extracting gmake-4.4.1: .......... done ===> mafft-7.267_1 depends on package: gmake>=4.4.1 - found ===> Returning to build of mafft-7.267_1 ===> mafft-7.267_1 depends on file: /usr/local/bin/ccache - not found ===> Installing existing package /packages/All/ccache-3.7.12_8.pkg [pkg.DaveG.ca] Installing ccache-3.7.12_8... [pkg.DaveG.ca] Extracting ccache-3.7.12_8: ......... done Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for clang create symlink for clang (world) create symlink for clang++ create symlink for clang++ (world) ===== Message from ccache-3.7.12_8: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. ===> mafft-7.267_1 depends on file: /usr/local/bin/ccache - found ===> Returning to build of mafft-7.267_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for mafft-7.267_1 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for mafft-7.267_1 cp mafftash_premafft.tmpl mafftash_premafft.pl cp seekquencer_premafft.tmpl seekquencer_premafft.pl cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c mtxutl.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c io.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c mltaln9.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c tddis.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c constants.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c nj.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c partSalignmm.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Lalignmm.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c rna.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Salignmm.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Dalignmm.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Falign.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Falign_localhom.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Galign11.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c MSalignmm.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c fftFunctions.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c fft.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c tditeration.c In file included from rna.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from rna.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from rna.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from rna.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from rna.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from rna.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from rna.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from rna.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from rna.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from rna.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from rna.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from rna.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c dvtditr.c In file included from nj.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from nj.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from nj.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from nj.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from nj.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from nj.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from nj.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from nj.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from nj.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from nj.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from nj.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from nj.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c defs.c In file included from tddis.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from tddis.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from tddis.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from tddis.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from tddis.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from tddis.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from tddis.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from tddis.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from tddis.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from tddis.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from tddis.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from tddis.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c SAalignmm.c -o SAalignmm.o cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c treeOperation.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c addfunctions.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c dndfast7.c In file included from fft.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from fft.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from fft.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from fft.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from fft.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from fft.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from fft.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from fft.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from fft.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from fft.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from fft.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from fft.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c dndblast.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c sextet5.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c mafft-distance.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c MSalign11.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c suboptalign11.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c genalign11.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c Lalign11.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c pairlocalalign.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c pair2hat3s.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c multi2hat3s.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c pairash.c In file included from defs.c:3: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from defs.c:3: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from defs.c:3: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from defs.c:3: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from defs.c:3: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from defs.c:3: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from defs.c:3: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from defs.c:3: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from defs.c:3: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from defs.c:3: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from defs.c:3: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from defs.c:3: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c addsingle.c In file included from Falign_localhom.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Falign_localhom.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ Falign_localhom.c:215:22: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a previous declaration [-Wdeprecated-non-prototype] 215 | extern Fukusosuu *AllocateFukusosuuVec(); | ^ ./functions.h:118:19: note: conflicting prototype is here 118 | extern Fukusosuu *AllocateFukusosuuVec( int l1 ); | ^ Falign_localhom.c:216:22: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a previous declaration [-Wdeprecated-non-prototype] 216 | extern Fukusosuu **AllocateFukusosuuMtx(); | ^ ./functions.h:119:20: note: conflicting prototype is here 119 | extern Fukusosuu **AllocateFukusosuuMtx( int l1, int l2 ); | ^ Falign_localhom.c:807:25: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 807 | totalscore += Aalign( tmpres1, tmpres2, eff1, eff2, clus1, clus2, alloclen ); | ^ 15 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c splittbfast.c In file included from Galign11.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Galign11.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Galign11.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Galign11.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Galign11.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Galign11.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Galign11.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Galign11.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Galign11.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Galign11.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Galign11.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Galign11.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c disttbfast.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c tbfast.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c mafft-profile.c In file included from treeOperation.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from treeOperation.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from treeOperation.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from treeOperation.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from treeOperation.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from treeOperation.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from treeOperation.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from treeOperation.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from treeOperation.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from treeOperation.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from treeOperation.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from treeOperation.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from fftFunctions.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from fftFunctions.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c f2cl.c In file included from dvtditr.c:4: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from dvtditr.c:4: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from dvtditr.c:4: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from dvtditr.c:4: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from dvtditr.c:4: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from dvtditr.c:4: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from dvtditr.c:4: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from dvtditr.c:4: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from dvtditr.c:4: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from dvtditr.c:4: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from dvtditr.c:4: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from dvtditr.c:4: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from suboptalign11.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from suboptalign11.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c mccaskillwrap.c In file included from SAalignmm.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ In file included from SAalignmm.c:1: ./mltaln.h:175:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent definition [-Wdeprecated-non-prototype] 175 | extern double Aalign(); | ^ SAalignmm.c:159:8: note: conflicting prototype is here 159 | double Aalign( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen ) | ^ 13 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c contrafoldwrap.c In file included from Lalignmm.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Lalignmm.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c countlen.c In file included from sextet5.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from sextet5.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from sextet5.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from sextet5.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from sextet5.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from sextet5.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from sextet5.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from sextet5.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from sextet5.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from sextet5.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from sextet5.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from sextet5.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c seq2regtable.c In file included from genalign11.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from genalign11.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from genalign11.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from genalign11.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from genalign11.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from genalign11.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from genalign11.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from genalign11.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from genalign11.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from genalign11.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from genalign11.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from genalign11.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from MSalign11.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from MSalign11.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from MSalign11.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from MSalign11.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from MSalign11.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from MSalign11.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from MSalign11.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from MSalign11.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from MSalign11.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from MSalign11.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from MSalign11.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from MSalign11.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c regtable2seq.c In file included from Salignmm.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Salignmm.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Salignmm.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Salignmm.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Salignmm.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Salignmm.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Salignmm.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Salignmm.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Salignmm.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Salignmm.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Salignmm.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Salignmm.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c score.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c getlag.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c dndpre.c In file included from mafft-distance.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from mafft-distance.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from Lalign11.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Lalign11.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Lalign11.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Lalign11.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Lalign11.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Lalign11.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Lalign11.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Lalign11.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Lalign11.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Lalign11.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Lalign11.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Lalign11.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from dndfast7.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from dndfast7.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from dndfast7.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from dndfast7.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from dndfast7.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from dndfast7.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from dndfast7.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from dndfast7.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from dndfast7.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from dndfast7.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from dndfast7.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from dndfast7.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from pair2hat3s.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from pair2hat3s.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from dndblast.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from dndblast.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from dndblast.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from dndblast.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from dndblast.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from dndblast.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from dndblast.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from dndblast.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from dndblast.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from dndblast.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from dndblast.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from dndblast.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from f2cl.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from f2cl.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from f2cl.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from f2cl.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from f2cl.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from f2cl.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from f2cl.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from f2cl.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from f2cl.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from f2cl.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from f2cl.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from f2cl.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c setcore.c In file included from multi2hat3s.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from multi2hat3s.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from Falign.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Falign.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Falign.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Falign.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Falign.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Falign.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Falign.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Falign.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Falign.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Falign.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Falign.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Falign.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ Falign.c:708:11: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 708 | Aalign( tmpres1, tmpres2, eff1, eff2, clus1, clus2, alloclen ); | ^ Falign.c:1511:25: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 1511 | totalscore += Aalign( tmpres1, tmpres2, eff1, eff2, clus1, clus2, alloclen ); | ^ 14 warnings generated. In file included from seq2regtable.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from seq2regtable.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c replaceu.c In file included from partSalignmm.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from partSalignmm.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from countlen.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from countlen.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from countlen.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from countlen.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from countlen.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from countlen.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from countlen.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from countlen.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from countlen.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from countlen.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from countlen.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from countlen.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c restoreu.c cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c setdirection.c In file included from mccaskillwrap.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from mccaskillwrap.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from regtable2seq.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from regtable2seq.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c makedirectionlist.c cc -o version version.c -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing In file included from tditeration.c:9: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from tditeration.c:9: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from tditeration.c:9: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from tditeration.c:9: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from tditeration.c:9: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from tditeration.c:9: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from tditeration.c:9: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from tditeration.c:9: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from tditeration.c:9: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from tditeration.c:9: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from tditeration.c:9: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from tditeration.c:9: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ tditeration.c:2127:22: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a previous declaration [-Wdeprecated-non-prototype] 2127 | extern double DSPscore(); | ^ ./functions.h:59:15: note: conflicting prototype is here 59 | extern double DSPscore( int s, char **seq ); | ^ tditeration.c:2128:22: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a previous declaration [-Wdeprecated-non-prototype] 2128 | extern double SSPscore(); | ^ ./functions.h:58:15: note: conflicting prototype is here 58 | extern double SSPscore( int s, char **seq ); | ^ 14 warnings generated. In file included from mafft-profile.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from mafft-profile.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. sed "s:_LIBDIR:/usr/local/libexec/mafft:" mafft.tmpl > mafft In file included from constants.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from constants.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from constants.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from constants.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from constants.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from constants.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from constants.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from constants.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from constants.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from constants.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from constants.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from constants.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. sed "s:_BINDIR:/usr/local/bin:" mafft-homologs.tmpl > mafft-homologs.rb In file included from pairash.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from pairash.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from pairash.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from pairash.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from pairash.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from pairash.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from pairash.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from pairash.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from pairash.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from pairash.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from pairash.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from pairash.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from contrafoldwrap.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from contrafoldwrap.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from getlag.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from getlag.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from getlag.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from getlag.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from getlag.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from getlag.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from getlag.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from getlag.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from getlag.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from getlag.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from getlag.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from getlag.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from restoreu.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from restoreu.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from restoreu.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from restoreu.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from restoreu.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from restoreu.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from restoreu.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from restoreu.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from restoreu.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from restoreu.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from restoreu.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from restoreu.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from version.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from version.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from version.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from MSalignmm.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from version.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from version.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from version.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from version.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from version.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from version.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from version.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from version.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from addfunctions.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from addfunctions.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from addfunctions.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from addfunctions.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from addfunctions.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from addfunctions.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from addfunctions.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from addfunctions.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from addfunctions.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from addfunctions.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from addfunctions.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from addfunctions.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from version.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ In file included from setcore.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from setcore.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from setcore.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from setcore.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from setcore.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from setcore.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from setcore.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from setcore.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from setcore.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from setcore.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from setcore.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from setcore.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. 12 warnings generated. In file included from score.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from score.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from score.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from score.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from score.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from score.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from score.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from score.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from score.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from score.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from score.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from score.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from replaceu.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from replaceu.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from replaceu.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from replaceu.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from replaceu.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from replaceu.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from replaceu.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from replaceu.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from replaceu.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from replaceu.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from replaceu.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from replaceu.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from setdirection.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from setdirection.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from setdirection.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from setdirection.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from setdirection.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from setdirection.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from setdirection.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from setdirection.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from setdirection.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from setdirection.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from setdirection.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from setdirection.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from dndpre.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from dndpre.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from dndpre.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from dndpre.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from dndpre.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from dndpre.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from dndpre.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from dndpre.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from dndpre.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from dndpre.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from dndpre.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from dndpre.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from tbfast.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from tbfast.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from tbfast.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from tbfast.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from tbfast.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from tbfast.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from tbfast.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from tbfast.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from tbfast.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from tbfast.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from tbfast.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from tbfast.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ tbfast.c:853:21: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 853 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, clus1, clus2, *alloclen ); | ^ tbfast.c:1181:21: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 1181 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, clus1, clus2, *alloclen ); | ^ 14 warnings generated. In file included from io.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from io.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from io.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from io.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from io.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from io.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from io.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from io.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from io.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from io.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from io.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from io.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ io.c:983:5: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 983 | int getaline_fp_eof_new(s, l, fp) /* end of file -> return 1 */ | ^ io.c:999:5: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 999 | int myfgets(s, l, fp) /* lʾϡޤɤФ */ | ^ 14 warnings generated. cc -o f2cl mtxutl.o io.o f2cl.o constants.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o countlen mtxutl.o io.o countlen.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o seq2regtable mtxutl.o io.o seq2regtable.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread In file included from makedirectionlist.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from makedirectionlist.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. In file included from splittbfast.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from splittbfast.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from splittbfast.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from splittbfast.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from splittbfast.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from splittbfast.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from splittbfast.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from splittbfast.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from splittbfast.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from splittbfast.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from splittbfast.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from splittbfast.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ splittbfast.c:1034:20: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 1034 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, clus1, clus2, *alloclen ); | ^ 13 warnings generated. In file included from pairlocalalign.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from pairlocalalign.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ pairlocalalign.c:2745:23: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 2745 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, 1, 1, alloclen ); | ^ 13 warnings generated. In file included from Dalignmm.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from Dalignmm.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ Dalignmm.c:4473:20: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] 4473 | if( ( !trywarp && abs( pairscore - wm +*impmatch ) > 0.01 ) || PFACERROR ) | ^ Dalignmm.c:4473:20: note: use function 'fabs' instead 4473 | if( ( !trywarp && abs( pairscore - wm +*impmatch ) > 0.01 ) || PFACERROR ) | ^~~ | fabs 13 warnings generated. In file included from addsingle.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from addsingle.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from addsingle.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from addsingle.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from addsingle.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from addsingle.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from addsingle.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from addsingle.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from addsingle.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from addsingle.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from addsingle.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from addsingle.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ addsingle.c:1424:21: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 1424 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, clus1, clus2, *alloclen ); | ^ 13 warnings generated. In file included from disttbfast.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from disttbfast.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from disttbfast.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from disttbfast.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from disttbfast.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from disttbfast.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from disttbfast.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from disttbfast.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from disttbfast.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from disttbfast.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from disttbfast.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from disttbfast.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ disttbfast.c:1162:21: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 1162 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, clus1, clus2, *alloclen ); | ^ disttbfast.c:1554:21: warning: passing arguments to 'Aalign' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 1554 | pscore = Aalign( mseq1, mseq2, effarr1, effarr2, clus1, clus2, *alloclen ); | ^ 14 warnings generated. In file included from mltaln9.c:1: ./mltaln.h:179:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 179 | extern void cpmx_calc(); | ^ ./functions.h:73:13: note: conflicting prototype is here 73 | extern void cpmx_calc( char **seq, double **cpmx, double *eff, int lgth, int clus ); | ^ In file included from mltaln9.c:1: ./mltaln.h:182:12: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 182 | extern int fastconjuction(); | ^ ./functions.h:79:12: note: conflicting prototype is here 79 | extern int fastconjuction( int *memlist, char **seq, char **aseq, double *peff, double *eff, char name[M][B], char aname[M][B], char *d ); | ^ In file included from mltaln9.c:1: ./mltaln.h:167:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 167 | extern double A__align11(); | ^ ./functions.h:130:15: note: conflicting prototype is here 130 | extern double A__align11( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch ); | ^ In file included from mltaln9.c:1: ./mltaln.h:166:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 166 | extern double A__align(); | ^ ./functions.h:140:15: note: conflicting prototype is here 140 | extern double A__align( double **scoringmtx, char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, char *gs1, char *gs2, char *ge1, char *ge2, int *, int, int *, int headgp, int tailgp ); | ^ In file included from mltaln9.c:1: ./mltaln.h:168:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 168 | extern double A__align_gapmap(); | ^ ./functions.h:142:15: note: conflicting prototype is here 142 | extern double A__align_gapmap( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int *gapmap1, int *gapmap2 ); | ^ In file included from mltaln9.c:1: ./mltaln.h:165:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 165 | extern double translate_and_Calign(); | ^ ./functions.h:144:15: note: conflicting prototype is here 144 | extern double translate_and_Calign( char **mseq1, char **mseq2, double *effarr1, double *effarr2, int clus1, int clus2, int alloclen ); | ^ In file included from mltaln9.c:1: ./mltaln.h:172:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 172 | extern double Falign(); | ^ ./functions.h:146:15: note: conflicting prototype is here 146 | extern double Falign( int **whichmtx, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, int *fftlog, int *, int, int * ); | ^ In file included from mltaln9.c:1: ./mltaln.h:173:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 173 | extern double Falign_localhom(); | ^ ./functions.h:148:8: note: conflicting prototype is here 148 | double Falign_localhom( int **which, double ***scoringmatrices, double **scoreingmtx, char **seq1, char **seq2, double *eff1, double *eff2, double **eff1s, double **eff2s, int clus1, int clus2, int alloclen, LocalHom ***localhom, double *totalimpmatch, int *gapmap1, int *gapmap2, int *chudanpt, int chudanref, int *chudanres ); | ^ In file included from mltaln9.c:1: ./mltaln.h:169:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 169 | extern double partA__align(); | ^ ./functions.h:152:15: note: conflicting prototype is here 152 | extern double partA__align( char **seq1, char **seq2, double *eff1, double *eff2, int icyc, int jcyc, int alloclen, LocalHom ***localhom, double *impmatch, int start1, int end1, int start2, int end2, int *gapmap1, int *gapmap2, char *, char *, char *, char *, int *, int, int * ); | ^ In file included from mltaln9.c:1: ./mltaln.h:171:15: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 171 | extern double G__align11(); | ^ ./functions.h:154:15: note: conflicting prototype is here 154 | extern double G__align11( double **scoringmtx, char **seq1, char **seq2, int alloclen, int headgp, int tailgp ); | ^ In file included from mltaln9.c:1: ./mltaln.h:178:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 178 | extern void ErrorExit(); | ^ ./functions.h:179:13: note: conflicting prototype is here 179 | extern void ErrorExit( char *message ); | ^ In file included from mltaln9.c:1: ./mltaln.h:152:13: warning: a function declaration without a prototype is deprecated in all versions of C and is treated as a zero-parameter prototype in C23, conflicting with a subsequent declaration [-Wdeprecated-non-prototype] 152 | extern void constants(); | ^ ./functions.h:252:13: note: conflicting prototype is here 252 | extern void constants( int nseq, char **seq ); | ^ 12 warnings generated. cc -o dvtditr mtxutl.o io.o mltaln9.o tddis.o constants.o nj.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o MSalignmm.o fftFunctions.o fft.o tditeration.o dvtditr.o defs.o SAalignmm.o treeOperation.o addfunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o dndfast7 dndfast7.o io.o constants.o mtxutl.o mltaln9.o tddis.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o dndblast dndblast.o io.o constants.o mtxutl.o mltaln9.o tddis.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o sextet5 io.o constants.o mtxutl.o mltaln9.o tddis.o sextet5.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o mafft-distance io.o constants.o mtxutl.o mltaln9.o tddis.o mafft-distance.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o pairlocalalign mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o MSalignmm.o Galign11.o MSalign11.o suboptalign11.o genalign11.o Lalign11.o SAalignmm.o pairlocalalign.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o pair2hat3s mtxutl.o io.o mltaln9.o tddis.o constants.o pair2hat3s.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o multi2hat3s mtxutl.o io.o mltaln9.o tddis.o constants.o multi2hat3s.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o pairash mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o MSalignmm.o Galign11.o MSalign11.o suboptalign11.o genalign11.o Lalign11.o SAalignmm.o pairash.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o addsingle mtxutl.o io.o mltaln9.o tddis.o constants.o MSalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o addsingle.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o splittbfast mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o Lalign11.o splittbfast.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o disttbfast mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o disttbfast.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o tbfast mtxutl.o io.o mltaln9.o tddis.o constants.o MSalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o tbfast.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o mafft-profile io.o mtxutl.o mltaln9.o tddis.o constants.o partSalignmm.o MSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o SAalignmm.o Galign11.o Falign.o Falign_localhom.o fftFunctions.o fft.o mafft-profile.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o mccaskillwrap mtxutl.o io.o mccaskillwrap.o constants.o defs.o mltaln9.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o contrafoldwrap mtxutl.o io.o contrafoldwrap.o constants.o defs.o mltaln9.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o regtable2seq mtxutl.o io.o regtable2seq.o defs.o mltaln9.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o score io.o mtxutl.o mltaln9.o score.o constants.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o getlag mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o Dalignmm.o getlag.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o dndpre dndpre.o io.o constants.o mtxutl.o mltaln9.o defs.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o setcore mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o setcore.o defs.o fft.o fftFunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o replaceu mtxutl.o io.o replaceu.o defs.o mltaln9.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o restoreu mtxutl.o io.o restoreu.o defs.o mltaln9.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o setdirection mtxutl.o io.o setdirection.o defs.o mltaln9.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread cc -o makedirectionlist mtxutl.o io.o mltaln9.o tddis.o constants.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o Lalign11.o makedirectionlist.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -lm -pthread =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for mafft-7.267_1 ===> Generating temporary packing list /bin/mkdir -p /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/libexec/mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/share/man/man1 install -m 555 mafft mafft-homologs.rb /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin install -s -m 555 dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s multi2hat3s pairash addsingle splittbfast disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag dndpre setcore replaceu restoreu setdirection makedirectionlist version /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/libexec/mafft install -m 555 mafftash_premafft.pl seekquencer_premafft.pl /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/libexec/mafft install -m 0644 mafft.1 mafft-homologs.1 /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/share/man/man1 /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/linsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/ginsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/fftns; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/fftnsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/nwns; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/nwnsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/einsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-linsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-ginsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-fftns; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-fftnsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-nwns; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-nwnsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-einsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-xinsi; /bin/ln -s mafft /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-qinsi; /bin/ln -s ../libexec/mafft/mafft-profile /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-profile /bin/ln -s ../libexec/mafft/mafft-distance /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/bin/mafft-distance install -m 0644 /wrkdirs/usr/ports/biology/mafft/work/mafft-7.267-without-extensions/test/* /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/share/examples/mafft install -m 0644 /wrkdirs/usr/ports/biology/mafft/work/mafft-7.267-without-extensions/readme /wrkdirs/usr/ports/biology/mafft/work/stage/usr/local/share/doc/mafft ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===== env: 'PKG_NOTES=build_timestamp ports_top_git_hash ports_top_checkout_unclean port_git_hash port_checkout_unclean built_by' 'PKG_NOTE_build_timestamp=2026-03-11T19:02:04+0000' 'PKG_NOTE_ports_top_git_hash=26b198eb3ee3' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=f5db6921ff60' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.2' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for mafft-7.267_1 ===> Building mafft-7.267_1 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for mafft-7.267_1 build of biology/mafft | mafft-7.267_1 ended at Wed Mar 11 15:02:25 EDT 2026 build time: 00:00:24