=> Building biology/p5-Bio-SCF build started at Fri Oct 7 23:43:35 PDT 2016 port directory: /usr/ports/biology/p5-Bio-SCF building for: DragonFly pkgbox64.dragonflybsd.org 4.7-DEVELOPMENT DragonFly v4.7.0.78.g7d868-DEVELOPMENT #7: Mon Aug 1 22:25:32 PDT 2016 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 maintained by: wen@FreeBSD.org ident warning: no id keywords in /build/boomdata/data/.m/Release46-default/ref/../03//usr/ports/biology/p5-Bio-SCF/Makefile Makefile ident: Poudriere version: 3.1-pre Host OSVERSION: 400700 Jail OSVERSION: 400600 ---Begin Environment--- STATUS=1 SAVED_TERM=screen MASTERMNT=/build/boomdata/data/.m/Release46-default/ref PATH=/usr/local/libexec/poudriere:/sbin:/bin:/usr/sbin:/usr/bin:/usr/pkg/bin:/usr/pkg/sbin:/usr/games:/usr/local/sbin:/usr/local/bin:/usr/pkg/xorg/bin:/usr/X11R6/bin:/root/bin:/sbin:/usr/sbin POUDRIERE_BUILD_TYPE=bulk PKGNAME=p5-Bio-SCF-1.03_1 OLDPWD=/root/boom PWD=/build/boomdata/data/.m/Release46-default/ref/.p/pool MASTERNAME=Release46-default TERM=cons25 USER=root HOME=/root POUDRIERE_VERSION=3.1-pre LOCALBASE=/usr/local PACKAGE_BUILDING=yes ---End Environment--- ---Begin OPTIONS List--- ---End OPTIONS List--- --CONFIGURE_ARGS-- INSTALLDIRS="site" CC="cc" CCFLAGS="-pipe -I/usr/local/include -O2 -fno-strict-aliasing" PREFIX="/usr/local" INSTALLPRIVLIB="/usr/local/lib" INSTALLARCHLIB="/usr/local/lib" --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl XDG_DATA_HOME=/wrkdirs/biology/p5-Bio-SCF XDG_CONFIG_HOME=/wrkdirs/biology/p5-Bio-SCF HOME=/wrkdirs/biology/p5-Bio-SCF TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 PERL_EXTUTILS_AUTOINSTALL="--skipdeps" PERL_MM_USE_DEFAULT="YES" --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/biology/p5-Bio-SCF XDG_CONFIG_HOME=/wrkdirs/biology/p5-Bio-SCF HOME=/wrkdirs/biology/p5-Bio-SCF TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc50 PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" NOPROFILE=1 CC="cc" CFLAGS="-pipe -I/usr/local/include -O2 -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS=" -L/usr/local/lib" LIBS="" CXX="c++" CXXFLAGS=" -pipe -I/usr/local/include -O2 -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 444" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- OSREL=4.6 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib PERL_VERSION=5.20.3 PERL_VER=5.20 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/5.20 PROFILE="@comment " DOCSDIR="share/doc/Bio-SCF" EXAMPLESDIR="share/examples/Bio-SCF" DATADIR="share/Bio-SCF" WWWDIR="www/Bio-SCF" ETCDIR="etc/Bio-SCF" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/Bio-SCF DOCSDIR=/usr/local/share/doc/Bio-SCF EXAMPLESDIR=/usr/local/share/examples/Bio-SCF WWWDIR=/usr/local/www/Bio-SCF ETCDIR=/usr/local/etc/Bio-SCF --End SUB_LIST-- ---Begin make.conf--- NO_BACKUP=yes USE_PACKAGE_DEPENDS=yes PKG_CREATE_VERBOSE=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORT_DBDIR=/options PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles MAKE_JOBS_NUMBER=5 ---End make.conf--- =================================================== =========================================================================== =================================================== ===> p5-Bio-SCF-1.03_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.8.7_3.txz Installing pkg-1.8.7_3... Extracting pkg-1.8.7_3: .......... done ===> p5-Bio-SCF-1.03_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of p5-Bio-SCF-1.03_1 =========================================================================== =================================================== =========================================================================== =================================================== ===> Fetching all distfiles required by p5-Bio-SCF-1.03_1 for building =========================================================================== =================================================== ===> Fetching all distfiles required by p5-Bio-SCF-1.03_1 for building => SHA256 Checksum OK for Bio-SCF-1.03.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Fetching all distfiles required by p5-Bio-SCF-1.03_1 for building ===> Extracting for p5-Bio-SCF-1.03_1 => SHA256 Checksum OK for Bio-SCF-1.03.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for p5-Bio-SCF-1.03_1 =========================================================================== =================================================== ===> p5-Bio-SCF-1.03_1 depends on file: /usr/local/include/io_lib/scf.h - not found ===> Installing existing package /packages/All/io_lib-1.14.8.txz Installing io_lib-1.14.8... `-- Installing curl-7.50.3... | `-- Installing ca_root_nss-3.27... | `-- Extracting ca_root_nss-3.27: ....... done | `-- Installing krb5-1.14.4... | | `-- Installing pkgconf-1.0.1... | | `-- Extracting pkgconf-1.0.1: .......... done | | `-- Installing gettext-runtime-0.19.8.1... | | `-- Installing indexinfo-0.2.5... | | `-- Extracting indexinfo-0.2.5: .... done | | `-- Extracting gettext-runtime-0.19.8.1: .......... done | `-- Extracting krb5-1.14.4: .......... done `-- Extracting curl-7.50.3: .......... done Extracting io_lib-1.14.8: .......... done Message from ca_root_nss-3.27: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> p5-Bio-SCF-1.03_1 depends on file: /usr/local/include/io_lib/scf.h - found ===> Returning to build of p5-Bio-SCF-1.03_1 ===> p5-Bio-SCF-1.03_1 depends on package: perl5>=5.20<5.21 - not found ===> Installing existing package /packages/All/perl5-5.20.3_15.txz Installing perl5-5.20.3_15... Extracting perl5-5.20.3_15: .......... done Message from perl5-5.20.3_15: The /usr/bin/perl symlink has been removed starting with Perl 5.20. For shebangs, you should either use: #!/usr/local/bin/perl or #!/usr/bin/env perl The first one will only work if you have a /usr/local/bin/perl, the second will work as long as perl is in PATH. ===> p5-Bio-SCF-1.03_1 depends on package: perl5>=5.20<5.21 - found ===> Returning to build of p5-Bio-SCF-1.03_1 =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for p5-Bio-SCF-1.03_1 Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::SCF Writing MYMETA.yml and MYMETA.json =========================================================================== =================================================== ===> Building for p5-Bio-SCF-1.03_1 --- blib/lib/Bio/.exists --- --- blib/arch/.exists --- --- blib/lib/auto/Bio/SCF/.exists --- --- blib/arch/auto/Bio/SCF/.exists --- --- blib/bin/.exists --- --- blib/script/.exists --- --- blib/man1/.exists --- --- blib/man3/.exists --- --- subdirs --- --- SCF.c --- /usr/local/bin/perl5.20.3 /usr/local/lib/perl5/5.20/ExtUtils/xsubpp -typemap /usr/local/lib/perl5/5.20/ExtUtils/typemap SCF.xs > SCF.xsc && mv SCF.xsc SCF.c --- SCF.bs --- Running Mkbootstrap for Bio::SCF () --- pm_to_blib --- --- SCF.bs --- chmod 644 SCF.bs --- blibdirs --- --- config --- --- pm_to_blib --- cp SCF.pm blib/lib/Bio/SCF.pm cp SCF/Arrays.pm blib/lib/Bio/SCF/Arrays.pm --- SCF.c --- Please specify prototyping behavior for SCF.xs (see perlxs manual) --- SCF.o --- cc -c -pipe -I/usr/local/include -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DVERSION=\"1.03\" -DXS_VERSION=\"1.03\" -DPIC -fPIC "-I/usr/local/lib/perl5/5.20/mach/CORE" -DLITTLE_ENDIAN SCF.c In file included from /usr/local/lib/perl5/5.20/mach/CORE/perl.h:5100:0, from SCF.xs:5: SCF.xs: In function 'XS_Bio__SCF_get_scf_pointer': SCF.xs:57:20: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] ret_val = newSViv((int)scf_data); ^ /usr/local/lib/perl5/5.20/mach/CORE/embed.h:379:40: note: in definition of macro 'newSViv' #define newSViv(a) Perl_newSViv(aTHX_ a) ^ SCF.xs: In function 'XS_Bio__SCF_get_scf_fpointer': SCF.xs:80:20: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] ret_val = newSViv((int)scf_data); ^ /usr/local/lib/perl5/5.20/mach/CORE/embed.h:379:40: note: in definition of macro 'newSViv' #define newSViv(a) Perl_newSViv(aTHX_ a) ^ SCF.xs: In function 'XS_Bio__SCF_scf_free': SCF.xs:89:17: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] scf_deallocate((Scf *)scf_pointer); ^ SCF.xs: In function 'XS_Bio__SCF_get_comments': SCF.xs:95:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_set_comments': SCF.xs:108:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_scf_write': SCF.xs:121:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_scf_fwrite': SCF.xs:137:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_get_from_header': SCF.xs:159:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_get_at': SCF.xs:186:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_set_base_at': SCF.xs:242:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ SCF.xs: In function 'XS_Bio__SCF_set_at': SCF.xs:255:18: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Scf *scf_data = (Scf *)scf_pointer; ^ --- blib/arch/auto/Bio/SCF/SCF.so --- rm -f blib/arch/auto/Bio/SCF/SCF.so LD_RUN_PATH="/usr/local/lib:/usr/lib" cc -shared -L/usr/local/lib/perl5/5.20/mach/CORE -lperl -L/usr/local/lib -fstack-protector SCF.o -o blib/arch/auto/Bio/SCF/SCF.so -lstaden-read -lz chmod 755 blib/arch/auto/Bio/SCF/SCF.so /usr/local/bin/perl5.20.3 -MExtUtils::Command::MM -e 'cp_nonempty' -- SCF.bs blib/arch/auto/Bio/SCF/SCF.bs 644 --- dynamic --- --- linkext --- --- pure_all --- --- manifypods --- Manifying blib/man3/Bio::SCF.3 --- all --- =========================================================================== =================================================== ===> p5-Bio-SCF-1.03_1 depends on file: /usr/local/include/io_lib/scf.h - found ===> p5-Bio-SCF-1.03_1 depends on package: perl5>=5.20<5.21 - found =========================================================================== =================================================== ===> Staging for p5-Bio-SCF-1.03_1 ===> Generating temporary packing list Running Mkbootstrap for Bio::SCF () chmod 644 SCF.bs Files found in blib/arch: installing files in blib/lib into architecture dependent library tree Installing /wrkdirs/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/mach/5.20/auto/Bio/SCF/SCF.so Installing /wrkdirs/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/mach/5.20/Bio/SCF.pm Installing /wrkdirs/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/mach/5.20/Bio/SCF/Arrays.pm Installing /wrkdirs/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SCF.3 ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===> Building package for p5-Bio-SCF-1.03_1 file sizes/checksums [5]: . done packing files [5]: . done packing directories [0]: . done =========================================================================== => Cleaning up wrkdir ===> Cleaning for p5-Bio-SCF-1.03_1 build of biology/p5-Bio-SCF ended at Fri Oct 7 23:43:49 PDT 2016 build time: 00:00:13