=>> Building biology/fasta build started at Tue Jan 20 21:43:25 EST 2026 port directory: /usr/ports/biology/fasta package name: fasta-21.1.1_1 building for: FreeBSD pkg.DaveG.ca 14.3-RELEASE-p7 FreeBSD 14.3-RELEASE-p7 1403000 amd64 maintained by: ports@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1524 Aug 27 2024 /usr/ports/biology/fasta/Makefile Ports top last git commit: 076a295eb33c Ports top unclean checkout: no Port dir last git commit: e10e2022a9b3 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1403000 Job Id: 11 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1403000 UNAME_v=FreeBSD 14.3-RELEASE-p7 1403000 UNAME_r=14.3-RELEASE-p7 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_3_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_3_x64-HEAD-ALL/11/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_14_3_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_14_3_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 fasta-21.1.1_1: DOCS=on: Build and/or install documentation ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- ports@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/fasta/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/fasta/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/fasta/work/.cache HOME=/wrkdirs/usr/ports/biology/fasta/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/fasta/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/fasta/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-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/fasta/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/fasta/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/fasta/work/.cache HOME=/wrkdirs/usr/ports/biology/fasta/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/fasta/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/fasta/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="" OSREL=14.3 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/fasta" EXAMPLESDIR="share/examples/fasta" DATADIR="share/fasta" WWWDIR="www/fasta" ETCDIR="etc/fasta" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/fasta DOCSDIR=/usr/local/share/doc/fasta EXAMPLESDIR=/usr/local/share/examples/fasta WWWDIR=/usr/local/www/fasta ETCDIR=/usr/local/etc/fasta --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 ===> NOTICE: The fasta port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> fasta-21.1.1_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.5.1.pkg [pkg.DaveG.ca] Installing pkg-2.5.1... [pkg.DaveG.ca] Extracting pkg-2.5.1: .......... done ===> fasta-21.1.1_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of fasta-21.1.1_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The fasta port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> Fetching all distfiles required by fasta-21.1.1_1 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The fasta port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> Fetching all distfiles required by fasta-21.1.1_1 for building => SHA256 Checksum OK for fasta-21.1.1.shar.Z. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The fasta port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> Fetching all distfiles required by fasta-21.1.1_1 for building ===> Extracting for fasta-21.1.1_1 => SHA256 Checksum OK for fasta-21.1.1.shar.Z. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for fasta-21.1.1_1 ===> Applying FreeBSD patches for fasta-21.1.1_1 from /usr/ports/biology/fasta/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> fasta-21.1.1_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. ===> fasta-21.1.1_1 depends on file: /usr/local/bin/ccache - found ===> Returning to build of fasta-21.1.1_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 fasta-21.1.1_1 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for fasta-21.1.1_1 --- plalign2.o --- --- plsim3.o --- --- lalign2.o --- --- apam.o --- --- lsim3.o --- --- lgetaa.o --- --- ndispn.o --- --- ag_stats.o --- --- time.o --- --- ps_dispn.o --- --- align.o --- --- llmax.o --- --- llmax0.o --- --- tgrease.o --- --- ps_plotsub.o --- --- chofas.o --- --- garnier.o --- --- plalign2.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -DTPLOT -c lalign2.c -o plalign2.o --- plsim3.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -DTPLOT -c lsim3.c -o plsim3.o --- lalign2.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c lalign2.c --- apam.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c apam.c --- lsim3.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c lsim3.c --- lgetaa.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -DNOLIB -c nxgetaa.c -o lgetaa.o --- ndispn.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c ndispn.c --- ag_stats.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c ag_stats.c --- time.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -DHZ=60 -c time.c --- ps_dispn.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c ps_dispn.c --- align.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c align.c --- llmax.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c llmax.c --- llmax0.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c llmax0.c --- tgrease.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c tgrease.c --- ps_plotsub.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c ps_plotsub.c --- chofas.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c chofas.c --- garnier.o --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN -c garnier.c --- time.o --- time.c:29:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 29 | ptime(fd,time) | ^ 1 warning generated. --- ps_plotsub.o --- ps_plotsub.c:97:13: warning: call to undeclared library function 'strchr' with type 'char *(const char *, int)'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration] 97 | for (bp = strchr(str,'('); (bp!=NULL); bp = strchr(bp+1,'(')) *bp=' '; | ^ ps_plotsub.c:97:13: note: include the header or explicitly provide a declaration for 'strchr' ps_plotsub.c:132:16: warning: call to undeclared library function 'strlen' with type 'unsigned long (const char *)'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration] 132 | move(SX(n/2)-strlen(title)*8,i); | ^ ps_plotsub.c:132:16: note: include the header or explicitly provide a declaration for 'strlen' 2 warnings generated. --- align.o --- align.c:202:16: warning: a function 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] 202 | char *cptr, *getenv(); | ^ /usr/include/stdlib.h:102:7: note: conflicting prototype is here 102 | char *getenv(const char *); | ^ align.c:227:22: warning: passing arguments to 'getopt' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 227 | while ((copt=getopt(argc,argv,"f:g:m:nO:qQs:w:x:"))!=EOF) | ^ 2 warnings generated. --- ps_dispn.o --- ps_dispn.c:128:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 128 | aancpy(to,from,count) | ^ ps_dispn.c:144:9: warning: a function 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] 144 | char *getenv(), *sptr; | ^ /usr/include/stdlib.h:102:7: note: conflicting prototype is here 102 | char *getenv(const char *); | ^ ps_dispn.c:199:10: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 199 | clsline(n0,n1,100000); | ^ ps_dispn.c:217:9: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 217 | clsline(n0,n1,10000); | ^ ps_dispn.c:207:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 207 | drawdiag(n0,n1) | ^ ps_dispn.c:257:10: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 257 | clsline(n,n,10000); | ^ ps_dispn.c:306:10: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 306 | clsline(n,n,10000); | ^ ps_dispn.c:340:12: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 340 | clsline(1000,1000,10000); | ^ ps_dispn.c:356:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 356 | linetype(type) | ^ ps_dispn.c:398:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 398 | clsline(x,y,s) | ^ ps_dispn.c:59:6: warning: a function declaration 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] 59 | void clsline(); | ^ ps_dispn.c:406:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 406 | move(x,y) | ^ ps_dispn.c:413:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 413 | draw(x,y) | ^ ps_dispn.c:420:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 420 | drawstr(str) | ^ 14 warnings generated. --- plalign2.o --- lalign2.c:193:21: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] 193 | if ((sqtype[0]=='D')) revcomp(aa0,n0); | ~~~~~~~~~^~~~~ lalign2.c:193:21: note: remove extraneous parentheses around the comparison to silence this warning 193 | if ((sqtype[0]=='D')) revcomp(aa0,n0); | ~ ^ ~ lalign2.c:193:21: note: use '=' to turn this equality comparison into an assignment 193 | if ((sqtype[0]=='D')) revcomp(aa0,n0); | ^~ | = lalign2.c:372:22: warning: passing arguments to 'getopt' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 372 | while ((copt=getopt(argc,argv,"E:K:f:g:iIL:m:nN:O:Qqr:Rs:w:v:x:Z:"))!=EOF) | ^ lalign2.c:579:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 579 | initseq(seqsiz) /* initialize arrays */ | ^ 3 warnings generated. --- lalign2.o --- lalign2.c:193:21: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] 193 | if ((sqtype[0]=='D')) revcomp(aa0,n0); | ~~~~~~~~~^~~~~ lalign2.c:193:21: note: remove extraneous parentheses around the comparison to silence this warning 193 | if ((sqtype[0]=='D')) revcomp(aa0,n0); | ~ ^ ~ lalign2.c:193:21: note: use '=' to turn this equality comparison into an assignment 193 | if ((sqtype[0]=='D')) revcomp(aa0,n0); | ^~ | = lalign2.c:372:22: warning: passing arguments to 'getopt' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 372 | while ((copt=getopt(argc,argv,"E:K:f:g:iIL:m:nN:O:Qqr:Rs:w:v:x:Z:"))!=EOF) | ^ lalign2.c:579:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 579 | initseq(seqsiz) /* initialize arrays */ | ^ 3 warnings generated. --- llmax.o --- llmax.c:218:19: warning: passing arguments to 'CHECK_SCORE' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 218 | ck = CHECK_SCORE(A,B,M,N,S,NC); | ^ llmax.c:15:12: 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 definition [-Wdeprecated-non-prototype] 15 | static int CHECK_SCORE(); | ^ llmax.c:283:12: note: conflicting prototype is here 283 | static int CHECK_SCORE(unsigned char *A, unsigned char *B, | ^ 2 warnings generated. --- lgetaa.o --- nxgetaa.c:447:7: warning: a function 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] 447 | long ftell(); | ^ /usr/include/stdio.h:267:7: note: conflicting prototype is here 267 | long ftell(FILE *); | ^ nxgetaa.c:600:7: warning: a function 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] 600 | long ftell(); | ^ /usr/include/stdio.h:267:7: note: conflicting prototype is here 267 | long ftell(FILE *); | ^ nxgetaa.c:404:6: warning: a function declaration 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] 404 | void ranlib(); | ^ nxgetaa.c:714:1: note: conflicting prototype is here 714 | RANLIB(char *str, int cnt, long seek) | ^ nxgetaa.c:407:16: note: expanded from macro 'RANLIB' 407 | #define RANLIB ranlib | ^ 3 warnings generated. --- psgrease --- --- garnier --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN garnier.o lgetaa.o -o garnier --- llmax0.o --- llmax0.c:50:12: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 50 | static int align(A,B,M,N,tb,te,topr,botr,lc,rc) char *A, *B; int M, N; | ^ llmax0.c:308:19: warning: passing arguments to 'CHECK_SCORE' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 308 | ck = CHECK_SCORE(A,B,M,N,S); | ^ llmax0.c:279:5: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 279 | int ALIGN(A,B,M,N,W,G,H,S) | ^ llmax0.c:369:12: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 369 | static int CHECK_SCORE(A,B,M,N,S) char A[], B[]; int M, N; int S[]; | ^ llmax0.c:16:12: 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 definition [-Wdeprecated-non-prototype] 16 | static int CHECK_SCORE(); | ^ 5 warnings generated. --- align --- cc align.o apam.o llmax.o lgetaa.o ndispn.o time.o -lm -o align --- align0 --- cc align.o apam.o llmax0.o lgetaa.o ndispn.o time.o -lm -o align0 --- chofas.o --- chofas.c:332:7: warning: add explicit braces to avoid dangling else [-Wdangling-else] 332 | else {cph[i]='-'; iarr[0]++;} | ^ 1 warning generated. --- chofas --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN chofas.o lgetaa.o -o chofas --- psgrease --- cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DUNIX -DPGM_DOC -DBIGMEM -DSFCHAR="':'" -DEXPM1 -DPROGRESS -DGAP_OPEN tgrease.o lgetaa.o ps_plotsub.o -o psgrease --- lsim3.o --- lsim3.c:322:12: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 322 | clsline((long)smin0,(long)smin1,score); | ^ lsim3.c:1041:55: warning: format specifies type 'int' but the argument has type 'size_t' (aka 'unsigned long') [-Wformat] 1041 | fprintf(stderr,"Ran out of near memory: %d/%ld\n",amount,mtotal); | ~~ ^~~~~~ | %zu 2 warnings generated. --- lalign --- cc lalign2.o apam.o lsim3.o lgetaa.o ndispn.o ag_stats.o time.o -lm -o lalign --- plsim3.o --- lsim3.c:322:12: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 322 | clsline((long)smin0,(long)smin1,score); | ^ lsim3.c:332:14: warning: passing arguments to 'clsline' without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 332 | clsline((long)smin0,(long)smin1,score); | ^ lsim3.c:1041:55: warning: format specifies type 'int' but the argument has type 'size_t' (aka 'unsigned long') [-Wformat] 1041 | fprintf(stderr,"Ran out of near memory: %d/%ld\n",amount,mtotal); | ~~ ^~~~~~ | %zu 3 warnings generated. --- plalign --- cc plalign2.o apam.o plsim3.o lgetaa.o ps_dispn.o ag_stats.o time.o -lm -o plalign =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for fasta-21.1.1_1 ===> Generating temporary packing list install -s -m 555 lalign plalign align align0 psgrease chofas garnier /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/bin install -m 444 /wrkdirs/usr/ports/biology/fasta/work/fasta/align.1 /wrkdirs/usr/ports/biology/fasta/work/fasta/fasta.1 /wrkdirs/usr/ports/biology/fasta/work/fasta/lalign.1 /wrkdirs/usr/ports/biology/fasta/work/fasta/prdf.1 /wrkdirs/usr/ports/biology/fasta/work/fasta/prss.1 /wrkdirs/usr/ports/biology/fasta/work/fasta/randseq.1 /wrkdirs/usr/ports/biology/fasta/work/fasta/ssearch.1 /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1 /bin/ln -s fasta.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/tfasta.1.gz /bin/ln -s fasta.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/lfasta.1.gz /bin/ln -s fasta.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/plfasta.1.gz /bin/ln -s fasta.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/fastx.1.gz /bin/ln -s fasta.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/tfastx.1.gz /bin/ln -s align.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/align0.1.gz /bin/ln -s align.1.gz /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/man/man1/plalign.1.gz install -m 0644 /wrkdirs/usr/ports/biology/fasta/work/fasta/COPYRIGHT /wrkdirs/usr/ports/biology/fasta/work/fasta/README.versions /wrkdirs/usr/ports/biology/fasta/work/fasta/fasta20.doc /wrkdirs/usr/ports/biology/fasta/work/fasta/fasta20.me /wrkdirs/usr/ports/biology/fasta/work/fasta/format.doc /wrkdirs/usr/ports/biology/fasta/work/fasta/readme.* /wrkdirs/usr/ports/biology/fasta/work/stage/usr/local/share/doc/fasta ====> 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=2026-01-21T02:43:25+0000' 'PKG_NOTE_ports_top_git_hash=076a295eb33c' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=e10e2022a9b3' '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 fasta-21.1.1_1 ===> Building fasta-21.1.1_1 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for fasta-21.1.1_1 build of biology/fasta | fasta-21.1.1_1 ended at Tue Jan 20 21:43:42 EST 2026 build time: 00:00:18