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Maintainer: [email protected] Log URL: https://pkg-status.freebsd.org/ampere2/data/main-armv7-default/p6fecc51c6cfb_s1344979687/logs/emboss-6.6.0_7.log Build URL: https://pkg-status.freebsd.org/ampere2/build.html?mastername=main-armv7-default&build=p6fecc51c6cfb_s1344979687 Log: =>> Building biology/emboss build started at Sat Sep 13 18:44:57 UTC 2025 port directory: /usr/ports/biology/emboss package name: emboss-6.6.0_7 building for: FreeBSD main-armv7-default-job-03 15.0-PRERELEASE FreeBSD 15.0-PRERELEASE 1500063 arm maintained by: [email protected] Makefile datestamp: -rw-r--r-- 1 root wheel 1771 Jan 6 2024 /usr/ports/biology/emboss/Makefile Ports top last git commit: 6fecc51c6cf Ports top unclean checkout: no Port dir last git commit: ee6c86aea57 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.3 Host OSVERSION: 1500061 Jail OSVERSION: 1500063 Job Id: 03 !!! Jail is newer than host. (Jail: 1500063, Host: 1500061) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500063 UNAME_v=FreeBSD 15.0-PRERELEASE 1500063 UNAME_r=15.0-PRERELEASE 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=3.4.3 MASTERMNT=/usr/local/poudriere/data/.m/main-armv7-default/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/main-armv7-default/03/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-armv7-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-armv7-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.3 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 emboss-6.6.0_7: DOCS=on: Build and/or install documentation MYSQL=off: MySQL database support X11=on: X11 (graphics) support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- [email protected] --End MAINTAINER-- --CONFIGURE_ARGS-- --with-docroot=/usr/local/emboss/share/EMBOSS/doc --x-libraries=/usr/local/lib --x-includes=/usr/local/include --prefix=/usr/local/emboss ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=/usr/local/bin/gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/emboss/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/emboss/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/emboss/work/.cache HOME=/wrkdirs/usr/ports/biology/emboss/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/emboss/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/emboss/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local" CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=524288 --End CONFIGURE_ENV-- --MAKE_ENV-- OPENSSLBASE=/usr OPENSSLDIR=/etc/ssl OPENSSLINC=/usr/include OPENSSLLIB=/usr/lib MOTIFLIB="-L/usr/local/lib -lXm" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/emboss/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/emboss/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/emboss/work/.cache HOME=/wrkdirs/usr/ports/biology/emboss/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/emboss/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/emboss/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/emboss LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include" LDFLAGS=" -L/usr/local/lib -L/usr/local/lib " LIBS="" CX X="c++" CXXFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include " 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=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local/emboss LIB32DIR=lib DOCSDIR="share/EMBOSS/doc" EXAMPLESDIR="share/examples/emboss" DATADIR="share/EMBOSS" WWWDIR="www/emboss" ETCDIR="etc/emboss" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local/emboss DATADIR=/usr/local/emboss/share/EMBOSS PREFIX=/usr/local/emboss LOCALBASE=/usr/local DATADIR=/usr/local/emboss/share/EMBOSS DOCSDIR=/usr/local/emboss/share/EMBOSS/doc EXAMPLESDIR=/usr/local/emboss/share/examples/emboss WWWDIR=/usr/local/emboss/www/emboss ETCDIR=/usr/local/emboss/etc/emboss --End SUB_LIST-- ---Begin make.conf--- # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 #### 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) 524288 stack size (kbytes, -s) 65536 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-- =======================<phase: check-sanity >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv2 accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> emboss-6.6.0_7 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.2.2.pkg [main-armv7-default-job-03] Installing pkg-2.2.2... [main-armv7-default-job-03] Extracting pkg-2.2.2: .......... done ===> emboss-6.6.0_7 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of emboss-6.6.0_7 =========================================================================== =======================<phase: fetch-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: fetch >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by emboss-6.6.0_7 for building =========================================================================== =======================<phase: checksum >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by emboss-6.6.0_7 for building => SHA256 Checksum OK for emboss/EMBOSS-6.6.0.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: extract >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by emboss-6.6.0_7 for building ===> Extracting for emboss-6.6.0_7 ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by emboss-6.6.0_7 for building => SHA256 Checksum OK for emboss/EMBOSS-6.6.0.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: patch >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for emboss-6.6.0_7 ===> Applying FreeBSD patches for emboss-6.6.0_7 from /usr/ports/biology/emboss/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> emboss-6.6.0_7 depends on executable: clustalw - not found <snip> /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ mv -f .deps/libajax_la-ajphylo.Tpo .deps/libajax_la-ajphylo.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrange.lo -MD -MP -MF .deps/libajax_la-ajrange.Tpo -c -o libajax_la-ajrange.lo `test -f 'ajrange.c' || echo './'`ajrange.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrange.lo -MD -MP -MF .deps/libajax_la-ajrange.Tpo -c ajrange.c -fPIC -DPIC -o .libs/libajax_la-ajrange.o 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajindex.lo -MD -MP -MF .deps/libajax_la-ajindex.Tpo -c ajindex.c -o libajax_la-ajindex.o >/dev/null 2>&1 In file included from ajrange.c:35: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajquery.lo -MD -MP -MF .deps/libajax_la-ajquery.Tpo -c ajquery.c -o libajax_la-ajquery.o >/dev/null 2>&1 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrange.lo -MD -MP -MF .deps/libajax_la-ajrange.Tpo -c ajrange.c -o libajax_la-ajrange.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajquery.Tpo .deps/libajax_la-ajquery.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajreg.lo -MD -MP -MF .deps/libajax_la-ajreg.Tpo -c -o libajax_la-ajreg.lo `test -f 'ajreg.c' || echo './'`ajreg.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajreg.lo -MD -MP -MF .deps/libajax_la-ajreg.Tpo -c ajreg.c -fPIC -DPIC -o .libs/libajax_la-ajreg.o In file included from ajreg.c:32: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajreg.lo -MD -MP -MF .deps/libajax_la-ajreg.Tpo -c ajreg.c -o libajax_la-ajreg.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajrange.Tpo .deps/libajax_la-ajrange.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajreport.lo -MD -MP -MF .deps/libajax_la-ajreport.Tpo -c -o libajax_la-ajreport.lo `test -f 'ajreport.c' || echo './'`ajreport.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajreport.lo -MD -MP -MF .deps/libajax_la-ajreport.Tpo -c ajreport.c -fPIC -DPIC -o .libs/libajax_la-ajreport.o In file included from ajreport.c:31: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ mv -f .deps/libajax_la-ajreg.Tpo .deps/libajax_la-ajreg.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseq.lo -MD -MP -MF .deps/libajax_la-ajrefseq.Tpo -c -o libajax_la-ajrefseq.lo `test -f 'ajrefseq.c' || echo './'`ajrefseq.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseq.lo -MD -MP -MF .deps/libajax_la-ajrefseq.Tpo -c ajrefseq.c -fPIC -DPIC -o .libs/libajax_la-ajrefseq.o In file included from ajrefseq.c:30: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseq.lo -MD -MP -MF .deps/libajax_la-ajrefseq.Tpo -c ajrefseq.c -o libajax_la-ajrefseq.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajrefseq.Tpo .deps/libajax_la-ajrefseq.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseqread.lo -MD -MP -MF .deps/libajax_la-ajrefseqread.Tpo -c -o libajax_la-ajrefseqread.lo `test -f 'ajrefseqread.c' || echo './'`ajrefseqread.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseqread.lo -MD -MP -MF .deps/libajax_la-ajrefseqread.Tpo -c ajrefseqread.c -fPIC -DPIC -o .libs/libajax_la-ajrefseqread.o In file included from ajrefseqread.c:31: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseqread.lo -MD -MP -MF .deps/libajax_la-ajrefseqread.Tpo -c ajrefseqread.c -o libajax_la-ajrefseqread.o >/dev/null 2>&1 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajreport.lo -MD -MP -MF .deps/libajax_la-ajreport.Tpo -c ajreport.c -o libajax_la-ajreport.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajrefseqread.Tpo .deps/libajax_la-ajrefseqread.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseqwrite.lo -MD -MP -MF .deps/libajax_la-ajrefseqwrite.Tpo -c -o libajax_la-ajrefseqwrite.lo `test -f 'ajrefseqwrite.c' || echo './'`ajrefseqwrite.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseqwrite.lo -MD -MP -MF .deps/libajax_la-ajrefseqwrite.Tpo -c ajrefseqwrite.c -fPIC -DPIC -o .libs/libajax_la-ajrefseqwrite.o In file included from ajrefseqwrite.c:28: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajrefseqwrite.lo -MD -MP -MF .deps/libajax_la-ajrefseqwrite.Tpo -c ajrefseqwrite.c -o libajax_la-ajrefseqwrite.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajreport.Tpo .deps/libajax_la-ajreport.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresource.lo -MD -MP -MF .deps/libajax_la-ajresource.Tpo -c -o libajax_la-ajresource.lo `test -f 'ajresource.c' || echo './'`ajresource.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresource.lo -MD -MP -MF .deps/libajax_la-ajresource.Tpo -c ajresource.c -fPIC -DPIC -o .libs/libajax_la-ajresource.o mv -f .deps/libajax_la-ajrefseqwrite.Tpo .deps/libajax_la-ajrefseqwrite.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresourceread.lo -MD -MP -MF .deps/libajax_la-ajresourceread.Tpo -c -o libajax_la-ajresourceread.lo `test -f 'ajresourceread.c' || echo './'`ajresourceread.c In file included from ajresource.c:31: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresourceread.lo -MD -MP -MF .deps/libajax_la-ajresourceread.Tpo -c ajresourceread.c -fPIC -DPIC -o .libs/libajax_la-ajresourceread.o In file included from ajresourceread.c:31: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresource.lo -MD -MP -MF .deps/libajax_la-ajresource.Tpo -c ajresource.c -o libajax_la-ajresource.o >/dev/null 2>&1 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresourceread.lo -MD -MP -MF .deps/libajax_la-ajresourceread.Tpo -c ajresourceread.c -o libajax_la-ajresourceread.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajresource.Tpo .deps/libajax_la-ajresource.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresourcewrite.lo -MD -MP -MF .deps/libajax_la-ajresourcewrite.Tpo -c -o libajax_la-ajresourcewrite.lo `test -f 'ajresourcewrite.c' || echo './'`ajresourcewrite.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresourcewrite.lo -MD -MP -MF .deps/libajax_la-ajresourcewrite.Tpo -c ajresourcewrite.c -fPIC -DPIC -o .libs/libajax_la-ajresourcewrite.o In file included from ajresourcewrite.c:28: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajresourcewrite.lo -MD -MP -MF .deps/libajax_la-ajresourcewrite.Tpo -c ajresourcewrite.c -o libajax_la-ajresourcewrite.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajresourceread.Tpo .deps/libajax_la-ajresourceread.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseq.lo -MD -MP -MF .deps/libajax_la-ajseq.Tpo -c -o libajax_la-ajseq.lo `test -f 'ajseq.c' || echo './'`ajseq.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseq.lo -MD -MP -MF .deps/libajax_la-ajseq.Tpo -c ajseq.c -fPIC -DPIC -o .libs/libajax_la-ajseq.o In file included from ajseq.c:32: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ mv -f .deps/libajax_la-ajresourcewrite.Tpo .deps/libajax_la-ajresourcewrite.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqabi.lo -MD -MP -MF .deps/libajax_la-ajseqabi.Tpo -c -o libajax_la-ajseqabi.lo `test -f 'ajseqabi.c' || echo './'`ajseqabi.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqabi.lo -MD -MP -MF .deps/libajax_la-ajseqabi.Tpo -c ajseqabi.c -fPIC -DPIC -o .libs/libajax_la-ajseqabi.o In file included from ajseqabi.c:30: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqabi.lo -MD -MP -MF .deps/libajax_la-ajseqabi.Tpo -c ajseqabi.c -o libajax_la-ajseqabi.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajseqabi.Tpo .deps/libajax_la-ajseqabi.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqbam.lo -MD -MP -MF .deps/libajax_la-ajseqbam.Tpo -c -o libajax_la-ajseqbam.lo `test -f 'ajseqbam.c' || echo './'`ajseqbam.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqbam.lo -MD -MP -MF .deps/libajax_la-ajseqbam.Tpo -c ajseqbam.c -fPIC -DPIC -o .libs/libajax_la-ajseqbam.o In file included from ajseqbam.c:31: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqbam.lo -MD -MP -MF .deps/libajax_la-ajseqbam.Tpo -c ajseqbam.c -o libajax_la-ajseqbam.o >/dev/null 2>&1 1 warning generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseq.lo -MD -MP -MF .deps/libajax_la-ajseq.Tpo -c ajseq.c -o libajax_la-ajseq.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajseqbam.Tpo .deps/libajax_la-ajseqbam.Plo /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM="\"FreeBSD\"" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqread.lo -MD -MP -MF .deps/libajax_la-ajseqread.Tpo -c -o libajax_la-ajseqread.lo `test -f 'ajseqread.c' || echo './'`ajseqread.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqread.lo -MD -MP -MF .deps/libajax_la-ajseqread.Tpo -c ajseqread.c -fPIC -DPIC -o .libs/libajax_la-ajseqread.o In file included from ajseqread.c:30: In file included from ./ajlib.h:34: ./ajdefine.h:60:9: warning: '__deprecated' macro redefined [-Wmacro-redefined] 60 | #define __deprecated __attribute__((deprecated)) | ^ /usr/include/sys/cdefs.h:157:9: note: previous definition is here 157 | #define __deprecated __attribute__((__deprecated__)) | ^ ajseqread.c:16412:20: warning: implicit conversion from enumeration type 'SeqEDesSwiss' to different enumeration type 'SeqESubSwiss' [-Wenum-conversion] 16412 | isub = SWISS_DES_UNK; | ~ ^~~~~~~~~~~~~ gmake[3]: *** [Makefile:1094: libajax_la-ajseq.lo] Error 1 gmake[3]: *** Waiting for unfinished jobs.... 2 warnings generated. libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/pcre -I../../ajax/expat -I../../ajax/zlib -I../../plplot -DNO_AUTH -I/usr/local/include -DAJAX_FIXED_ROOT=\"/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/emboss\" -DAJAX_SYSTEM=\"FreeBSD\" -DPREFIX=\"/usr/local/emboss\" -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DDOC_ROOT=\"/usr/local/emboss/share/EMBOSS/doc\" -DAJ_FreeBSDLF -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -MT libajax_la-ajseqread.lo -MD -MP -MF .deps/libajax_la-ajseqread.Tpo -c ajseqread.c -o libajax_la-ajseqread.o >/dev/null 2>&1 mv -f .deps/libajax_la-ajindex.Tpo .deps/libajax_la-ajindex.Plo mv -f .deps/libajax_la-ajseqread.Tpo .deps/libajax_la-ajseqread.Plo gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/core' gmake[2]: *** [Makefile:538: all] Error 2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/core' gmake[1]: *** [Makefile:329: all-recursive] Error 1 gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax' gmake: *** [Makefile:375: all-recursive] Error 1 ===> Compilation failed unexpectedly. Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to the maintainer. *** Error code 1 Stop. make[1]: stopped making "build-message do-build post-build" in /usr/ports/biology/emboss *** Error code 1 Stop. make: stopped making "build" in /usr/ports/biology/emboss
