------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/libnghttp2-1.41.0.txz Installing /packages/All/ca_root_nss-3.56.txz ===== Message from ca_root_nss-3.56: -- 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. 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 Installing /packages/All/openssl-1.1.1g,1.txz Installing /packages/All/curl-7.72.0.txz Installing /packages/All/io_lib-1.14.10.txz Installing /packages/All/perl5-5.32.0.txz SUCCEEDED 00:00:07 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-Bio-SCF-1.03_2 for building SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-Bio-SCF-1.03_2 for building => SHA256 Checksum OK for Bio-SCF-1.03.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-Bio-SCF-1.03_2 for building ===> Extracting for p5-Bio-SCF-1.03_2 => SHA256 Checksum OK for Bio-SCF-1.03.tar.gz. Extracted Memory Use: 0.24M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for p5-Bio-SCF-1.03_2 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/include/io_lib/scf.h - found ===> p5-Bio-SCF-1.03_2 depends on package: perl5>=5.32.r0<5.33 - found ===> p5-Bio-SCF-1.03_2 depends on package: perl5>=5.32.r0<5.33 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/include/io_lib/scf.h - found ===> p5-Bio-SCF-1.03_2 depends on package: perl5>=5.32.r0<5.33 - found ===> p5-Bio-SCF-1.03_2 depends on package: perl5>=5.32.r0<5.33 - found ===> Configuring for p5-Bio-SCF-1.03_2 Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::SCF Writing MYMETA.yml and MYMETA.json SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for p5-Bio-SCF-1.03_2 --- 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 --- --- config --- --- subdirs --- --- dynamic --- --- SCF.c --- --- SCF.bs --- --- SCF.c --- "/usr/local/bin/perl" "/usr/local/lib/perl5/5.32/ExtUtils/xsubpp" -typemap '/usr/local/lib/perl5/5.32/ExtUtils/typemap' SCF.xs > SCF.xsc --- SCF.bs --- Running Mkbootstrap for SCF () --- pm_to_blib --- --- SCF.bs --- chmod 644 "SCF.bs" --- blib/arch/auto/Bio/SCF/SCF.bs --- "/usr/local/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SCF.bs blib/arch/auto/Bio/SCF/SCF.bs 644 --- blibdirs --- --- config --- --- pm_to_blib --- cp SCF/Arrays.pm blib/lib/Bio/SCF/Arrays.pm cp SCF.pm blib/lib/Bio/SCF.pm --- SCF.c --- Please specify prototyping behavior for SCF.xs (see perlxs manual) mv SCF.xsc SCF.c --- SCF.o --- cc -c -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DVERSION=\"1.03\" -DXS_VERSION=\"1.03\" -DPIC -fPIC "-I/usr/local/lib/perl5/5.32/mach/CORE" -DLITTLE_ENDIAN SCF.c In file included from /usr/local/lib/perl5/5.32/mach/CORE/perl.h:5603, 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/perl5/5.32/mach/CORE/embed.h:376:40: 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/perl5/5.32/mach/CORE/embed.h:376:40: 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/perl5/5.32/mach/CORE -lperl -L/usr/local/lib -fstack-protector-strong SCF.o -o blib/arch/auto/Bio/SCF/SCF.so -lstaden-read -lz chmod 755 blib/arch/auto/Bio/SCF/SCF.so --- dynamic --- --- linkext --- --- pure_all --- --- manifypods --- Manifying 1 pod document --- all --- SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/include/io_lib/scf.h - found ===> p5-Bio-SCF-1.03_2 depends on package: perl5>=5.32.r0<5.33 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for p5-Bio-SCF-1.03_2 ===> p5-Bio-SCF-1.03_2 depends on file: /usr/local/include/io_lib/scf.h - found ===> p5-Bio-SCF-1.03_2 depends on package: perl5>=5.32.r0<5.33 - found ===> Generating temporary packing list "/usr/local/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SCF.bs blib/arch/auto/Bio/SCF/SCF.bs 644 Manifying 1 pod document Files found in blib/arch: installing files in blib/lib into architecture dependent library tree Installing /construction/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/mach/5.32/auto/Bio/SCF/SCF.so Installing /construction/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/mach/5.32/Bio/SCF.pm Installing /construction/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/mach/5.32/Bio/SCF/Arrays.pm Installing /construction/biology/p5-Bio-SCF/stage/usr/local/lib/perl5/site_perl/man/man3/Bio::SCF.3 ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: 'lib/perl5/site_perl/mach/5.32/auto/Bio/SCF/SCF.so' is not stripped consider trying INSTALL_TARGET=install-strip or using ${STRIP_CMD} Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for p5-Bio-SCF-1.03_2 file sizes/checksums [5]: 0% file sizes/checksums [5]: 100% packing files [5]: 0% packing files [5]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:00:11