Date: Tue, 22 Aug 2017 21:39:20 GMT From: pkg-fallout@FreeBSD.org To: bacon4000@gmail.com Cc: pkg-fallout@FreeBSD.org Subject: [exp - 103i386-default-build-as-user][science/afni] Failed for afni-2015.11.13_5 in build Message-ID: <201708222139.v7MLdKun065215@package19.nyi.freebsd.org>
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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: bacon4000@gmail.com Last committer: pawel@FreeBSD.org Ident: $FreeBSD: head/science/afni/Makefile 446540 2017-07-24 18:26:39Z pawel $ Log URL: http://package19.nyi.freebsd.org/data/103i386-default-build-as-user/448504/logs/afni-2015.11.13_5.log Build URL: http://package19.nyi.freebsd.org/build.html?mastername=103i386-default-build-as-user&build=448504 Log: ====>> Building science/afni build started at Tue Aug 22 21:34:25 UTC 2017 port directory: /usr/ports/science/afni building for: FreeBSD 103i386-default-build-as-user-job-29 10.3-RELEASE-p21 FreeBSD 10.3-RELEASE-p21 i386 maintained by: bacon4000@gmail.com Makefile ident: $FreeBSD: head/science/afni/Makefile 446540 2017-07-24 18:26:39Z pawel $ Poudriere version: 3.1.19-61-ga8829ba9 Host OSVERSION: 1200040 Jail OSVERSION: 1003000 Job Id: 29 ---Begin Environment--- SHELL=/bin/csh UNAME_p=i386 UNAME_m=i386 OSVERSION=1003000 UNAME_v=FreeBSD 10.3-RELEASE-p21 UNAME_r=10.3-RELEASE-p21 BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 SAVED_TERM= MASTERMNT=/poudriere/data/.m/103i386-default-build-as-user/ref UID=0 PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin POUDRIERE_BUILD_TYPE=bulk PKGNAME=afni-2015.11.13_5 OLDPWD=/ PWD=/poudriere/data/.m/103i386-default-build-as-user/ref/.p/pool MASTERNAME=103i386-default-build-as-user SCRIPTPREFIX=/usr/local/share/poudriere USER=root HOME=/root POUDRIERE_VERSION=3.1.19-61-ga8829ba9 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh GID=0 LIBEXECPREFIX=/usr/local/libexec/poudriere LOCALBASE=/usr/local POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/usr/ports/science/afni/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/afni/work HOME=/wrkdirs/usr/ports/science/afni/work TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- CC="cc" R_SHARE_DIR=/usr/local/lib/R/share MOTIFLIB="-L/usr/local/lib -lXm -lXp" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/afni/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/afni/work HOME=/wrkdirs/usr/ports/science/afni/work TMPDIR="/tmp" NO_PIE=yes WITHOUT_DEBUG_FILES=yes WITHOUT_KERNEL_SYMBOLS=yes SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="cc" CFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing" CPP="cpp" CPPFLAGS="-DLIBICONV_PLUG" LDFLAGS=" -fstack-protector" LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -DLIBICONV_PLUG" MANPREFIX="/usr/local" 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-- PYTHON_INCLUDEDIR=include/python2.7 PYTHON_LIBDIR=lib/python2.7 PYTHON_PLATFORM=freebsd10 PYTHON_PYOEXTENSION=pyo PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_SUFFIX=27 PYTHON_VER=2.7 PYTHON_VERSION=python2.7 PYTHON2="" PYTHON3="@comment " GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" OSREL=10.3 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib PERL_VERSION=5.24.2 PERL_VER=5.24 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.24 DOCSDIR="share/doc/afni" EXAMPLESDIR="share/examples/afni" DATADIR="share/afni" WWWDIR="www/afni" ETCDIR="etc/afni" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/afni DOCSDIR=/usr/local/share/doc/afni EXAMPLESDIR=/usr/local/share/examples/afni WWWDIR=/usr/local/www/afni ETCDIR=/usr/local/etc/afni --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes MACHINE=i386 MACHINE_ARCH=i386 ARCH=${MACHINE_ARCH} #### /usr/local/etc/poudriere.d/make.conf #### # Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs MAKE_JOBS_NUMBER=2 #### /usr/ports/Mk/Scripts/ports_env.sh #### ARCH=i386 CONFIGURE_MAX_CMD_LEN=262144 OPSYS=FreeBSD OSREL=10.3 OSVERSION=1003000 PYTHONBASE=/usr/local _JAVA_OS_LIST_REGEXP=native|linux _JAVA_VENDOR_LIST_REGEXP=openjdk|oracle|sun _JAVA_VERSION_LIST_REGEXP=1.6|1.7|1.8|1.6\+|1.7\+|1.8\+ _OSRELEASE=10.3-RELEASE-p21 #### Misc Poudriere #### DISABLE_MAKE_JOBS=poudriere ---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) 1024 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited sbsize (bytes, -b) unlimited pseudo-terminals (-p) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===> License GPLv2 accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===> afni-2015.11.13_5 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.1.txz [103i386-default-build-as-user-job-29] Installing pkg-1.10.1... [103i386-default-build-as-user-job-29] Extracting pkg-1.10.1: .......... done ===> afni-2015.11.13_5 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of afni-2015.11.13_5 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by afni-2015.11.13_5 for building =========================================================================== =======================<phase: checksum >============================ ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by afni-2015.11.13_5 for building => SHA256 Checksum OK for afni-2015.11.13.tar.xz. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by afni-2015.11.13_5 for building ===> Extracting for afni-2015.11.13_5 => SHA256 Checksum OK for afni-2015.11.13.tar.xz. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for afni-2015.11.13_5 ===> Applying FreeBSD patches for afni-2015.11.13_5 /usr/bin/sed -i.bak -e "s|-lglib|-lglib-2.0|g" /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/SUMA/SUMA_Makefile /usr/bin/sed -i.bak -e "s|/bin/python|/usr/local/bin/python2.7|g" /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/python_scripts/lib_fat_Rfactor.py /usr/bin/sed -i.bak -e 's|os\.path\.dirname(sys\.argv\[0\])|"/usr/local/libexec"|g' /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/pkundu/meica.py /usr/bin/sed -i.bak -e 's|g_info|afni_g_info|g' /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/rickr/Dimon.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/rickr/Dimon1.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/afni_history_rickr.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/mri_dicom_stuff.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/mri_process_siemens.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/mri_read_dicom.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/to3d.c /wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/mri_dicom_stuff.h =========================================================================== =======================<phase: build-depends >============================ ===> afni-2015.11.13_5 depends on executable: gm4 - not found ===> Installing existing package /packages/All/m4-1.4.18,1.txz [103i386-default-build-as-user-job-29] Installing m4-1.4.18,1... [103i386-default-build-as-user-job-29] `-- Installing indexinfo-0.2.6... [103i386-default-build-as-user-job-29] `-- Extracting indexinfo-0.2.6: .... done [103i386-default-build-as-user-job-29] Extracting m4-1.4.18,1: .......... done ===> afni-2015.11.13_5 depends on executable: gm4 - found ===> Returning to build of afni-2015.11.13_5 ===> afni-2015.11.13_5 depends on executable: msgfmt - not found <snip> /bin/rm -f vp_warpA101N.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA101N.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA301N.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA301N.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA110N.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA110N.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA111N.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA111N.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA330N.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA330N.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA331N.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA331N.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA330R.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA330R.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B /bin/rm -f vp_warpA331R.o cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -c vp_warpA331R.c -I. -I.. -I. -I/usr/local/include -Inifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../nifti/nifti2 -I../3DEdge/src -I../rickr -DHAVE_ZLIB -DCOMP_AC11B -DCOMP_AC31B -DCOMP_AC32B -DCOMP_AR11B -DCOMP_AR31B -DCOMP_AR32B rm -f libvolpack.a ar cr libvolpack.a vp_check.o vp_context.o vp_extract.o vp_file.o vp_linalg.o vp_octree.o vp_renderA.o vp_renderB.o vp_renderC.o vp_renderR.o vp_resample.o vp_rle.o vp_shade.o vp_transpose.o vp_util.o vp_view.o vp_warp.o vp_opts.o vp_compAC1NB.o vp_compAC3NB.o vp_compAR1NB.o vp_compAR3NB.o vp_compAC1PB.o vp_compAC3PB.o vp_compAR1PB.o vp_compAR3PB.o vp_compAC00G.o vp_compAR00G.o vp_compAC1NS.o vp_compAC3NS.o vp_compAR1NS.o vp_compAR3NS.o vp_compAC11B.o vp_compAC31B.o vp_compAC32B.o vp_compAR11B.o vp_compAR31B.o vp_compAR32B.o vp_warpA101N.o vp_warpA301N.o vp_warpA110N.o vp_warpA111N.o vp_warpA330N.o vp_warpA331N.o vp_warpA330R.o vp_warpA331R.o /usr/bin/ranlib libvolpack.a /bin/rm -f *.o gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/volpack' ( cd ptaylor ; \ ./@MakeLocalMake ;\ gmake clean libtracktools.a ; \ /bin/cp -f libtracktools.a ../; \ cd ../ ; ) grep: Makefile: No such file or directory Got relative path, append Local Makefile created. gmake[2]: Entering directory '/wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/ptaylor' /bin/rm -f *.o *.a 3dTrackID 3dProbTrackID 3dDWUncert 3dReHo 3dRSFC map_TrackID 3dROIMaker 3dMatch 3dNetCorr 1dDW_Grad_o_Mat 3dEigsToDT 3dDTtoNoisyDWI 3dTORTOISEtoHere cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c DoTrackit.c DoTrackit.c:409:19: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if( ( temp_arr2 == NULL) ) { ~~~~~~~~~~^~~~~~~ DoTrackit.c:409:19: note: remove extraneous parentheses around the comparison to silence this warning if( ( temp_arr2 == NULL) ) { ~~ ^ ~ DoTrackit.c:409:19: note: use '=' to turn this equality comparison into an assignment if( ( temp_arr2 == NULL) ) { ^~ = DoTrackit.c:432:26: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if( ( intersec == NULL)) { ~~~~~~~~~^~~~~~~ DoTrackit.c:432:26: note: remove extraneous parentheses around the comparison to silence this warning if( ( intersec == NULL)) { ~~ ^ ~ DoTrackit.c:432:26: note: use '=' to turn this equality comparison into an assignment if( ( intersec == NULL)) { ^~ = DoTrackit.c:831:37: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if(( temp_arr_FL== NULL)) { ~~~~~~~~~~~^~~~~~~ DoTrackit.c:831:37: note: remove extraneous parentheses around the comparison to silence this warning if(( temp_arr_FL== NULL)) { ~ ^ ~ DoTrackit.c:831:37: note: use '=' to turn this equality comparison into an assignment if(( temp_arr_FL== NULL)) { ^~ = DoTrackit.c:839:37: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if(( temp_arr_BY== NULL)) { ~~~~~~~~~~~^~~~~~~ DoTrackit.c:839:37: note: remove extraneous parentheses around the comparison to silence this warning if(( temp_arr_BY== NULL)) { ~ ^ ~ DoTrackit.c:839:37: note: use '=' to turn this equality comparison into an assignment if(( temp_arr_BY== NULL)) { ^~ = DoTrackit.c:853:21: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if(( temp_arr2== NULL)) { ~~~~~~~~~^~~~~~~ DoTrackit.c:853:21: note: remove extraneous parentheses around the comparison to silence this warning if(( temp_arr2== NULL)) { ~ ^ ~ DoTrackit.c:853:21: note: use '=' to turn this equality comparison into an assignment if(( temp_arr2== NULL)) { ^~ = 5 warnings generated. cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c TrackIO.c In file included from TrackIO.c:1: In file included from ../afni.h:1576: ./afni_setup.h:7:9: warning: '_AFNI_SETUP_HEADER_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _AFNI_SETUP_HEADER_ ^~~~~~~~~~~~~~~~~~~ ./afni_setup.h:8:9: note: '_AFNI_SETUP_HEADER' is defined here; did you mean '_AFNI_SETUP_HEADER_'? #define _AFNI_SETUP_HEADER ^~~~~~~~~~~~~~~~~~ _AFNI_SETUP_HEADER_ 1 warning generated. cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c rsfc.c In file included from rsfc.c:1: In file included from ../afni.h:1576: ./afni_setup.h:7:9: warning: '_AFNI_SETUP_HEADER_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _AFNI_SETUP_HEADER_ ^~~~~~~~~~~~~~~~~~~ ./afni_setup.h:8:9: note: '_AFNI_SETUP_HEADER' is defined here; did you mean '_AFNI_SETUP_HEADER_'? #define _AFNI_SETUP_HEADER ^~~~~~~~~~~~~~~~~~ _AFNI_SETUP_HEADER_ rsfc.c:76:9: warning: implicit declaration of function 'gsl_sort_vector_index' is invalid in C99 [-Wimplicit-function-declaration] val = gsl_sort_vector_index (P,Y); ^ rsfc.c:265:19: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if( (AVE_TS_fl == NULL) ) { ~~~~~~~~~~^~~~~~~ rsfc.c:265:19: note: remove extraneous parentheses around the comparison to silence this warning if( (AVE_TS_fl == NULL) ) { ~ ^ ~ rsfc.c:265:19: note: use '=' to turn this equality comparison into an assignment if( (AVE_TS_fl == NULL) ) { ^~ = rsfc.c:320:26: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if( (zscores == NULL) ) { ~~~~~~~~^~~~~~~ rsfc.c:320:26: note: remove extraneous parentheses around the comparison to silence this warning if( (zscores == NULL) ) { ~ ^ ~ rsfc.c:320:26: note: use '=' to turn this equality comparison into an assignment if( (zscores == NULL) ) { ^~ = rsfc.c:329:18: warning: add explicit braces to avoid dangling else [-Wdangling-else] else if ( THD_get_voxel(OUT_CORR_MAP, j, 0) < -MAX_R ) ^ 5 warnings generated. cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c diffusiony.c In file included from diffusiony.c:1: In file included from ../afni.h:1576: ./afni_setup.h:7:9: warning: '_AFNI_SETUP_HEADER_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _AFNI_SETUP_HEADER_ ^~~~~~~~~~~~~~~~~~~ ./afni_setup.h:8:9: note: '_AFNI_SETUP_HEADER' is defined here; did you mean '_AFNI_SETUP_HEADER_'? #define _AFNI_SETUP_HEADER ^~~~~~~~~~~~~~~~~~ _AFNI_SETUP_HEADER_ 1 warning generated. cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c FuncTrac.c In file included from FuncTrac.c:3: In file included from ../afni.h:1576: ./afni_setup.h:7:9: warning: '_AFNI_SETUP_HEADER_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _AFNI_SETUP_HEADER_ ^~~~~~~~~~~~~~~~~~~ ./afni_setup.h:8:9: note: '_AFNI_SETUP_HEADER' is defined here; did you mean '_AFNI_SETUP_HEADER_'? #define _AFNI_SETUP_HEADER ^~~~~~~~~~~~~~~~~~ _AFNI_SETUP_HEADER_ 1 warning generated. cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c roiing.c In file included from roiing.c:1: In file included from ../afni.h:1576: ./afni_setup.h:7:9: warning: '_AFNI_SETUP_HEADER_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _AFNI_SETUP_HEADER_ ^~~~~~~~~~~~~~~~~~~ ./afni_setup.h:8:9: note: '_AFNI_SETUP_HEADER' is defined here; did you mean '_AFNI_SETUP_HEADER_'? #define _AFNI_SETUP_HEADER ^~~~~~~~~~~~~~~~~~ _AFNI_SETUP_HEADER_ roiing.c:174:15: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if( (list1 == NULL) //|| (VOX == NULL) ~~~~~~^~~~~~~ roiing.c:174:15: note: remove extraneous parentheses around the comparison to silence this warning if( (list1 == NULL) //|| (VOX == NULL) ~ ^ ~ roiing.c:174:15: note: use '=' to turn this equality comparison into an assignment if( (list1 == NULL) //|| (VOX == NULL) ^~ = 2 warnings generated. cc -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -O2 -pipe -DLIBICONV_PLUG -fstack-protector -fno-strict-aliasing -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -Wno-return-type -Wno-switch -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA -I. -I/usr/local/include -I/usr/local/include -I../nifti/nifti2 -I../nifti/niftilib -I../nifti/nifticdf -I../nifti/znzlib -I../3DEdge/src -I../rickr -I../ -I../niml/ -Igts/src -I../SUMA/ -c Fat_Labels.c rm -f libtracktools.a ar q libtracktools.a DoTrackit.o TrackIO.o rsfc.o diffusiony.o FuncTrac.o roiing.o Fat_Labels.o ar: warning: creating libtracktools.a echo "library Rebuilt ..." library Rebuilt ... /usr/bin/ranlib libtracktools.a gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/afni/work/afni-2015.11.13/ptaylor' ( if which R >/dev/null ; then \ echo PKG_CPPFLAGS = -I. -I/usr/local/include -Inifti/nifti2 -Inifti/niftilib -Inifti/nifticdf -Inifti/znzlib -I3DEdge/src -Irickr -DHAVE_ZLIB -DHAVE_GIFTI -I/usr/local/lib/R/include > Makevars ;\ echo PKG_LIBS = -s -L. -L/usr/local/lib -lmri -lf2c -lXm -lXp -lXpm -lXext -lXmu -lXt -lX11 -lm -lz -L/usr/local/lib -lexpat -L/usr/local/lib/R/lib >> Makevars ;\ # Fails because R uses 'make' instead of gmake R CMD SHLIB -n R_io.c; \ gmake -f 'Makevars' -f '/usr/local/lib/R/etc/Makeconf' -f '/usr/local/lib/R/share/make/shlib.mk' SHLIB='R_io.so' OBJECTS='R_io.o';\ else echo WARNING: Cannot build R_io.so because R is not installed;\ fi ; ) gmake[2]: Entering directory '/wrkdirs/usr/ports/science/afni/work/afni-2015.11.13' /usr/local/bin/clang40 -I -DNDEBUG -I. -I/usr/local/include -Inifti/nifti2 -Inifti/niftilib -Inifti/nifticdf -Inifti/znzlib -I3DEdge/src -Irickr -DHAVE_ZLIB -DHAVE_GIFTI -I/usr/local/lib/R/include -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing -c R_io.c -o R_io.o gmake[2]: /usr/local/bin/clang40: Command not found gmake[2]: *** [/usr/local/lib/R/etc/Makeconf:159: R_io.o] Error 127 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/afni/work/afni-2015.11.13' gmake[1]: *** [Makefile.INCLUDE:3523: R_io.so] Error 2 gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/afni/work/afni-2015.11.13' *** Error code 1 Stop. make: stopped in /usr/ports/science/afni
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