[package - main-powerpc64le-default][biology/emboss] Failed for emboss-6.6.0_7 in build
- Go to: [ bottom of page ] [ top of archives ] [ this month ]
Date: Thu, 07 Dec 2023 11:58:42 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: wen@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/foul2/data/main-powerpc64le-default/pff89313922da_s51e7276365/logs/emboss-6.6.0_7.log
Build URL: https://pkg-status.freebsd.org/foul2/build.html?mastername=main-powerpc64le-default&build=pff89313922da_s51e7276365
Log:
=>> Building biology/emboss
build started at Thu Dec 7 11:51:43 UTC 2023
port directory: /usr/ports/biology/emboss
package name: emboss-6.6.0_7
building for: FreeBSD main-powerpc64le-default-job-03 15.0-CURRENT FreeBSD 15.0-CURRENT 1500005 powerpc
maintained by: wen@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 1766 Nov 12 01:03 /usr/ports/biology/emboss/Makefile
Ports top last git commit: ff89313922
Ports top unclean checkout: no
Port dir last git commit: 23253ea43f
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.3.0-1258-gbc38e2e6
Host OSVERSION: 1500000
Jail OSVERSION: 1500005
Job Id: 03
!!! Jail is newer than host. (Jail: 1500005, Host: 1500000) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
---Begin Environment---
SHELL=/bin/sh
OSVERSION=1500005
UNAME_v=FreeBSD 15.0-CURRENT 1500005
UNAME_r=15.0-CURRENT
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
LOCALBASE=/usr/local
USER=root
POUDRIERE_NAME=poudriere-git
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.3.0-1258-gbc38e2e6
MASTERMNT=/usr/local/poudriere/data/.m/main-powerpc64le-default/ref
LC_COLLATE=C
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
OUTPUT_REDIRECTED_STDERR=4
OUTPUT_REDIRECTED=1
PWD=/usr/local/poudriere/data/.m/main-powerpc64le-default/03/.p
OUTPUT_REDIRECTED_STDOUT=3
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
MASTERNAME=main-powerpc64le-default
SCRIPTPREFIX=/usr/local/share/poudriere
SCRIPTNAME=bulk.sh
OLDPWD=/usr/local/poudriere/data/.m/main-powerpc64le-default/ref/.p/pool
POUDRIERE_PKGNAME=poudriere-git-3.3.0-1258-gbc38e2e6
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--
wen@FreeBSD.org
--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=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 -fstack-protector-strong -L/usr/local/l
ib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include " MANPREFIX="/usr/local/emboss" 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---
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) 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
--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-1.20.9.pkg
[main-powerpc64le-default-job-03] Installing pkg-1.20.9...
[main-powerpc64le-default-job-03] Extracting pkg-1.20.9: .......... 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
===> Installing existing package /packages/All/clustalw-2.1_3.pkg
[main-powerpc64le-default-job-03] Installing clustalw-2.1_3...
[main-powerpc64le-default-job-03] Extracting clustalw-2.1_3: ..... done
===> emboss-6.6.0_7 depends on executable: clustalw - found
===> Returning to build of emboss-6.6.0_7
===> emboss-6.6.0_7 depends on executable: primer3 - not found
===> Installing existing package /packages/All/primer3-2.3.6.pkg
[main-powerpc64le-default-job-03] Installing primer3-2.3.6...
[main-powerpc64le-default-job-03] Extracting primer3-2.3.6: .... done
<snip>
trees.c:1222:12: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
local void copy_block(s, buf, len, header)
^
1 warning generated.
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 inftrees.lo -MD -MP -MF .deps/inftrees.Tpo -c inftrees.c -o inftrees.o >/dev/null 2>&1
mv -f .deps/inftrees.Tpo .deps/inftrees.Plo
/bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 uncompr.lo -MD -MP -MF .deps/uncompr.Tpo -c -o uncompr.lo uncompr.c
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 uncompr.lo -MD -MP -MF .deps/uncompr.Tpo -c uncompr.c -fPIC -DPIC -o .libs/uncompr.o
uncompr.c:24:13: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
int ZEXPORT uncompress (dest, destLen, source, sourceLen)
^
./zlibemboss.h:102:33: note: expanded from macro 'uncompress'
# define uncompress euncompress
^
1 warning generated.
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 uncompr.lo -MD -MP -MF .deps/uncompr.Tpo -c uncompr.c -o uncompr.o >/dev/null 2>&1
18 warnings generated.
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 inflate.lo -MD -MP -MF .deps/inflate.Tpo -c inflate.c -o inflate.o >/dev/null 2>&1
mv -f .deps/uncompr.Tpo .deps/uncompr.Plo
/bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 zutil.lo -MD -MP -MF .deps/zutil.Tpo -c -o zutil.lo zutil.c
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 zutil.lo -MD -MP -MF .deps/zutil.Tpo -c zutil.c -fPIC -DPIC -o .libs/zutil.o
20 warnings generated.
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 trees.lo -MD -MP -MF .deps/trees.Tpo -c trees.c -o trees.o >/dev/null 2>&1
zutil.c:133:22: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
const char * ZEXPORT zError(err)
^
./zlibemboss.h:103:33: note: expanded from macro 'zError'
# define zError ezError
^
zutil.c:300:22: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
voidpf ZLIB_INTERNAL zcalloc (opaque, items, size)
^
./zlibemboss.h:104:33: note: expanded from macro 'zcalloc'
# define zcalloc ezcalloc
^
zutil.c:310:20: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
void ZLIB_INTERNAL zcfree (opaque, ptr)
^
./zlibemboss.h:105:33: note: expanded from macro 'zcfree'
# define zcfree ezcfree
^
3 warnings generated.
libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../ajax/core -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 zutil.lo -MD -MP -MF .deps/zutil.Tpo -c zutil.c -o zutil.o >/dev/null 2>&1
mv -f .deps/zutil.Tpo .deps/zutil.Plo
mv -f .deps/trees.Tpo .deps/trees.Plo
mv -f .deps/inflate.Tpo .deps/inflate.Plo
/bin/sh ../../libtool --tag=CC --mode=link cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -I/usr/local/include -version-info 2:0:1 -L/usr/local/lib -fstack-protector-strong -L/usr/local/lib -o libezlib.la -rpath /usr/local/emboss/lib adler32.lo compress.lo crc32.lo deflate.lo gzclose.lo gzlib.lo gzread.lo gzwrite.lo infback.lo inffast.lo inflate.lo inftrees.lo trees.lo uncompr.lo zutil.lo -lm -lgd -lpng -lz -lm
libtool: link: cc -shared -fPIC -DPIC .libs/adler32.o .libs/compress.o .libs/crc32.o .libs/deflate.o .libs/gzclose.o .libs/gzlib.o .libs/gzread.o .libs/gzwrite.o .libs/infback.o .libs/inffast.o .libs/inflate.o .libs/inftrees.o .libs/trees.o .libs/uncompr.o .libs/zutil.o -Wl,-rpath -Wl,/usr/local/lib -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib /usr/local/lib/libgd.so -lpng -lz -lm -O2 -fstack-protector-strong -O2 -fstack-protector-strong -Wl,-soname -Wl,libezlib.so.1 -o .libs/libezlib.so.1.1.0
libtool: link: (cd ".libs" && rm -f "libezlib.so.1" && ln -s "libezlib.so.1.1.0" "libezlib.so.1")
libtool: link: (cd ".libs" && rm -f "libezlib.so" && ln -s "libezlib.so.1.1.0" "libezlib.so")
libtool: link: ar cru .libs/libezlib.a adler32.o compress.o crc32.o deflate.o gzclose.o gzlib.o gzread.o gzwrite.o infback.o inffast.o inflate.o inftrees.o trees.o uncompr.o zutil.o
libtool: link: ranlib .libs/libezlib.a
libtool: link: ( cd ".libs" && rm -f "libezlib.la" && ln -s "../libezlib.la" "libezlib.la" )
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/zlib'
Making all in core
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/core'
gmake all-am
gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/core'
/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-ajalign.lo -MD -MP -MF .deps/libajax_la-ajalign.Tpo -c -o libajax_la-ajalign.lo `test -f 'ajalign.c' || echo './'`ajalign.c
/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-ajarr.lo -MD -MP -MF .deps/libajax_la-ajarr.Tpo -c -o libajax_la-ajarr.lo `test -f 'ajarr.c' || echo './'`ajarr.c
/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-ajassem.lo -MD -MP -MF .deps/libajax_la-ajassem.Tpo -c -o libajax_la-ajassem.lo `test -f 'ajassem.c' || echo './'`ajassem.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-ajarr.lo -MD -MP -MF .deps/libajax_la-ajarr.Tpo -c ajarr.c -fPIC -DPIC -o .libs/libajax_la-ajarr.o
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-ajalign.lo -MD -MP -MF .deps/libajax_la-ajalign.Tpo -c ajalign.c -fPIC -DPIC -o .libs/libajax_la-ajalign.o
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-ajassem.lo -MD -MP -MF .deps/libajax_la-ajassem.Tpo -c ajassem.c -fPIC -DPIC -o .libs/libajax_la-ajassem.o
ajassem.c:1015:35: warning: adding 'char' to a string does not append to the string [-Wstring-plus-int]
ajErr("unrecognised cigar op: " + cigar->cigoperator[i]);
~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
ajassem.c:1015:35: note: use array indexing to silence this warning
ajErr("unrecognised cigar op: " + cigar->cigoperator[i]);
^
& [ ]
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-ajassem.lo -MD -MP -MF .deps/libajax_la-ajassem.Tpo -c ajassem.c -o libajax_la-ajassem.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajassem.Tpo .deps/libajax_la-ajassem.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-ajassemread.lo -MD -MP -MF .deps/libajax_la-ajassemread.Tpo -c -o libajax_la-ajassemread.lo `test -f 'ajassemread.c' || echo './'`ajassemread.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-ajassemread.lo -MD -MP -MF .deps/libajax_la-ajassemread.Tpo -c ajassemread.c -fPIC -DPIC -o .libs/libajax_la-ajassemread.o
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-ajassemread.lo -MD -MP -MF .deps/libajax_la-ajassemread.Tpo -c ajassemread.c -o libajax_la-ajassemread.o >/dev/null 2>&1
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-ajalign.lo -MD -MP -MF .deps/libajax_la-ajalign.Tpo -c ajalign.c -o libajax_la-ajalign.o >/dev/null 2>&1
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-ajarr.lo -MD -MP -MF .deps/libajax_la-ajarr.Tpo -c ajarr.c -o libajax_la-ajarr.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajassemread.Tpo .deps/libajax_la-ajassemread.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-ajassemwrite.lo -MD -MP -MF .deps/libajax_la-ajassemwrite.Tpo -c -o libajax_la-ajassemwrite.lo `test -f 'ajassemwrite.c' || echo './'`ajassemwrite.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-ajassemwrite.lo -MD -MP -MF .deps/libajax_la-ajassemwrite.Tpo -c ajassemwrite.c -fPIC -DPIC -o .libs/libajax_la-ajassemwrite.o
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-ajassemwrite.lo -MD -MP -MF .deps/libajax_la-ajassemwrite.Tpo -c ajassemwrite.c -o libajax_la-ajassemwrite.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajalign.Tpo .deps/libajax_la-ajalign.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-ajassert.lo -MD -MP -MF .deps/libajax_la-ajassert.Tpo -c -o libajax_la-ajassert.lo `test -f 'ajassert.c' || echo './'`ajassert.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-ajassert.lo -MD -MP -MF .deps/libajax_la-ajassert.Tpo -c ajassert.c -fPIC -DPIC -o .libs/libajax_la-ajassert.o
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-ajassert.lo -MD -MP -MF .deps/libajax_la-ajassert.Tpo -c ajassert.c -o libajax_la-ajassert.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajassert.Tpo .deps/libajax_la-ajassert.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-ajbamindex.lo -MD -MP -MF .deps/libajax_la-ajbamindex.Tpo -c -o libajax_la-ajbamindex.lo `test -f 'ajbamindex.c' || echo './'`ajbamindex.c
mv -f .deps/libajax_la-ajassemwrite.Tpo .deps/libajax_la-ajassemwrite.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-ajbase.lo -MD -MP -MF .deps/libajax_la-ajbase.Tpo -c -o libajax_la-ajbase.lo `test -f 'ajbase.c' || echo './'`ajbase.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-ajbamindex.lo -MD -MP -MF .deps/libajax_la-ajbamindex.Tpo -c ajbamindex.c -fPIC -DPIC -o .libs/libajax_la-ajbamindex.o
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-ajbase.lo -MD -MP -MF .deps/libajax_la-ajbase.Tpo -c ajbase.c -fPIC -DPIC -o .libs/libajax_la-ajbase.o
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-ajbase.lo -MD -MP -MF .deps/libajax_la-ajbase.Tpo -c ajbase.c -o libajax_la-ajbase.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajarr.Tpo .deps/libajax_la-ajarr.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-ajcall.lo -MD -MP -MF .deps/libajax_la-ajcall.Tpo -c -o libajax_la-ajcall.lo `test -f 'ajcall.c' || echo './'`ajcall.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-ajcall.lo -MD -MP -MF .deps/libajax_la-ajcall.Tpo -c ajcall.c -fPIC -DPIC -o .libs/libajax_la-ajcall.o
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-ajbamindex.lo -MD -MP -MF .deps/libajax_la-ajbamindex.Tpo -c ajbamindex.c -o libajax_la-ajbamindex.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajbase.Tpo .deps/libajax_la-ajbase.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-ajcigar.lo -MD -MP -MF .deps/libajax_la-ajcigar.Tpo -c -o libajax_la-ajcigar.lo `test -f 'ajcigar.c' || echo './'`ajcigar.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-ajcall.lo -MD -MP -MF .deps/libajax_la-ajcall.Tpo -c ajcall.c -o libajax_la-ajcall.o >/dev/null 2>&1
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-ajcigar.lo -MD -MP -MF .deps/libajax_la-ajcigar.Tpo -c ajcigar.c -fPIC -DPIC -o .libs/libajax_la-ajcigar.o
mv -f .deps/libajax_la-ajcall.Tpo .deps/libajax_la-ajcall.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-ajcod.lo -MD -MP -MF .deps/libajax_la-ajcod.Tpo -c -o libajax_la-ajcod.lo `test -f 'ajcod.c' || echo './'`ajcod.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-ajcod.lo -MD -MP -MF .deps/libajax_la-ajcod.Tpo -c ajcod.c -fPIC -DPIC -o .libs/libajax_la-ajcod.o
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-ajcigar.lo -MD -MP -MF .deps/libajax_la-ajcigar.Tpo -c ajcigar.c -o libajax_la-ajcigar.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajcigar.Tpo .deps/libajax_la-ajcigar.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-ajdan.lo -MD -MP -MF .deps/libajax_la-ajdan.Tpo -c -o libajax_la-ajdan.lo `test -f 'ajdan.c' || echo './'`ajdan.c
mv -f .deps/libajax_la-ajbamindex.Tpo .deps/libajax_la-ajbamindex.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-ajdmx.lo -MD -MP -MF .deps/libajax_la-ajdmx.Tpo -c -o libajax_la-ajdmx.lo `test -f 'ajdmx.c' || echo './'`ajdmx.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-ajdan.lo -MD -MP -MF .deps/libajax_la-ajdan.Tpo -c ajdan.c -fPIC -DPIC -o .libs/libajax_la-ajdan.o
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-ajdmx.lo -MD -MP -MF .deps/libajax_la-ajdmx.Tpo -c ajdmx.c -fPIC -DPIC -o .libs/libajax_la-ajdmx.o
ajdmx.c:1557:27: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
if((scophit->Type == ajEDomainTypeSCOP))
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
ajdmx.c:1557:27: note: remove extraneous parentheses around the comparison to silence this warning
if((scophit->Type == ajEDomainTypeSCOP))
~ ^ ~
ajdmx.c:1557:27: note: use '=' to turn this equality comparison into an assignment
if((scophit->Type == ajEDomainTypeSCOP))
^~
=
ajdmx.c:1559:33: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
else if ((scophit->Type == ajEDomainTypeCATH))
~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
ajdmx.c:1559:33: note: remove extraneous parentheses around the comparison to silence this warning
else if ((scophit->Type == ajEDomainTypeCATH))
~ ^ ~
ajdmx.c:1559:33: note: use '=' to turn this equality comparison into an assignment
else if ((scophit->Type == ajEDomainTypeCATH))
^~
=
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-ajdan.lo -MD -MP -MF .deps/libajax_la-ajdan.Tpo -c ajdan.c -o libajax_la-ajdan.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajdan.Tpo .deps/libajax_la-ajdan.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-ajdom.lo -MD -MP -MF .deps/libajax_la-ajdom.Tpo -c -o libajax_la-ajdom.lo `test -f 'ajdom.c' || echo './'`ajdom.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-ajdom.lo -MD -MP -MF .deps/libajax_la-ajdom.Tpo -c ajdom.c -fPIC -DPIC -o .libs/libajax_la-ajdom.o
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-ajdmx.lo -MD -MP -MF .deps/libajax_la-ajdmx.Tpo -c ajdmx.c -o libajax_la-ajdmx.o >/dev/null 2>&1
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-ajcod.lo -MD -MP -MF .deps/libajax_la-ajcod.Tpo -c ajcod.c -o libajax_la-ajcod.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajdmx.Tpo .deps/libajax_la-ajdmx.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-ajdomain.lo -MD -MP -MF .deps/libajax_la-ajdomain.Tpo -c -o libajax_la-ajdomain.lo `test -f 'ajdomain.c' || echo './'`ajdomain.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-ajdomain.lo -MD -MP -MF .deps/libajax_la-ajdomain.Tpo -c ajdomain.c -fPIC -DPIC -o .libs/libajax_la-ajdomain.o
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-ajdom.lo -MD -MP -MF .deps/libajax_la-ajdom.Tpo -c ajdom.c -o libajax_la-ajdom.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajcod.Tpo .deps/libajax_la-ajcod.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-ajexcept.lo -MD -MP -MF .deps/libajax_la-ajexcept.Tpo -c -o libajax_la-ajexcept.lo `test -f 'ajexcept.c' || echo './'`ajexcept.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-ajexcept.lo -MD -MP -MF .deps/libajax_la-ajexcept.Tpo -c ajexcept.c -fPIC -DPIC -o .libs/libajax_la-ajexcept.o
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-ajexcept.lo -MD -MP -MF .deps/libajax_la-ajexcept.Tpo -c ajexcept.c -o libajax_la-ajexcept.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajexcept.Tpo .deps/libajax_la-ajexcept.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-ajfeat.lo -MD -MP -MF .deps/libajax_la-ajfeat.Tpo -c -o libajax_la-ajfeat.lo `test -f 'ajfeat.c' || echo './'`ajfeat.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-ajfeat.lo -MD -MP -MF .deps/libajax_la-ajfeat.Tpo -c ajfeat.c -fPIC -DPIC -o .libs/libajax_la-ajfeat.o
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-ajdomain.lo -MD -MP -MF .deps/libajax_la-ajdomain.Tpo -c ajdomain.c -o libajax_la-ajdomain.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajdom.Tpo .deps/libajax_la-ajdom.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-ajfeatread.lo -MD -MP -MF .deps/libajax_la-ajfeatread.Tpo -c -o libajax_la-ajfeatread.lo `test -f 'ajfeatread.c' || echo './'`ajfeatread.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-ajfeatread.lo -MD -MP -MF .deps/libajax_la-ajfeatread.Tpo -c ajfeatread.c -fPIC -DPIC -o .libs/libajax_la-ajfeatread.o
mv -f .deps/libajax_la-ajdomain.Tpo .deps/libajax_la-ajdomain.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-ajfeatwrite.lo -MD -MP -MF .deps/libajax_la-ajfeatwrite.Tpo -c -o libajax_la-ajfeatwrite.lo `test -f 'ajfeatwrite.c' || echo './'`ajfeatwrite.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-ajfeatwrite.lo -MD -MP -MF .deps/libajax_la-ajfeatwrite.Tpo -c ajfeatwrite.c -fPIC -DPIC -o .libs/libajax_la-ajfeatwrite.o
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-ajfeat.lo -MD -MP -MF .deps/libajax_la-ajfeat.Tpo -c ajfeat.c -o libajax_la-ajfeat.o >/dev/null 2>&1
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-ajfeatwrite.lo -MD -MP -MF .deps/libajax_la-ajfeatwrite.Tpo -c ajfeatwrite.c -o libajax_la-ajfeatwrite.o >/dev/null 2>&1
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-ajfeatread.lo -MD -MP -MF .deps/libajax_la-ajfeatread.Tpo -c ajfeatread.c -o libajax_la-ajfeatread.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajfeatwrite.Tpo .deps/libajax_la-ajfeatwrite.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-ajfile.lo -MD -MP -MF .deps/libajax_la-ajfile.Tpo -c -o libajax_la-ajfile.lo `test -f 'ajfile.c' || echo './'`ajfile.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-ajfile.lo -MD -MP -MF .deps/libajax_la-ajfile.Tpo -c ajfile.c -fPIC -DPIC -o .libs/libajax_la-ajfile.o
mv -f .deps/libajax_la-ajfeat.Tpo .deps/libajax_la-ajfeat.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-ajfiledata.lo -MD -MP -MF .deps/libajax_la-ajfiledata.Tpo -c -o libajax_la-ajfiledata.lo `test -f 'ajfiledata.c' || echo './'`ajfiledata.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-ajfiledata.lo -MD -MP -MF .deps/libajax_la-ajfiledata.Tpo -c ajfiledata.c -fPIC -DPIC -o .libs/libajax_la-ajfiledata.o
mv -f .deps/libajax_la-ajfeatread.Tpo .deps/libajax_la-ajfeatread.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-ajfileio.lo -MD -MP -MF .deps/libajax_la-ajfileio.Tpo -c -o libajax_la-ajfileio.lo `test -f 'ajfileio.c' || echo './'`ajfileio.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-ajfileio.lo -MD -MP -MF .deps/libajax_la-ajfileio.Tpo -c ajfileio.c -fPIC -DPIC -o .libs/libajax_la-ajfileio.o
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-ajfiledata.lo -MD -MP -MF .deps/libajax_la-ajfiledata.Tpo -c ajfiledata.c -o libajax_la-ajfiledata.o >/dev/null 2>&1
ajfileio.c:271:7: warning: call to undeclared function 'ajSysFuncFgets'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
cp = ajSysFuncFgets(&buff[ipos], isize, file->fp);
^
ajfileio.c:271:5: error: incompatible integer to pointer conversion assigning to 'const char *' from 'int' [-Wint-conversion]
cp = ajSysFuncFgets(&buff[ipos], isize, file->fp);
^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1 warning and 1 error generated.
gmake[5]: *** [Makefile:884: libajax_la-ajfileio.lo] Error 1
gmake[5]: *** Waiting for unfinished jobs....
mv -f .deps/libajax_la-ajfiledata.Tpo .deps/libajax_la-ajfiledata.Plo
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-ajfile.lo -MD -MP -MF .deps/libajax_la-ajfile.Tpo -c ajfile.c -o libajax_la-ajfile.o >/dev/null 2>&1
mv -f .deps/libajax_la-ajfile.Tpo .deps/libajax_la-ajfile.Plo
gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/core'
gmake[4]: *** [Makefile:538: all] Error 2
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax/core'
gmake[3]: *** [Makefile:329: all-recursive] Error 1
gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0/ajax'
gmake[2]: *** [Makefile:375: all-recursive] Error 1
gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/emboss/work/EMBOSS-6.6.0'
===> 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 in /usr/ports/biology/emboss
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/emboss