------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/libdeflate-1.6.txz Installing /packages/All/libnghttp2-1.41.0.txz Installing /packages/All/ca_root_nss-3.58.txz ===== Message from ca_root_nss-3.58: -- 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-1.1.1h_1,1.txz Installing /packages/All/curl-7.73.0.txz Installing /packages/All/htslib-1.10.2.txz SUCCEEDED 00:00:03 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> tabixpp-1.0.0.10_1 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> tabixpp-1.0.0.10_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by tabixpp-1.0.0.10_1 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> tabixpp-1.0.0.10_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by tabixpp-1.0.0.10_1 for building => SHA256 Checksum OK for ekg-tabixpp-v1.0.0-10-g6bbe690_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> tabixpp-1.0.0.10_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by tabixpp-1.0.0.10_1 for building ===> Extracting for tabixpp-1.0.0.10_1 => SHA256 Checksum OK for ekg-tabixpp-v1.0.0-10-g6bbe690_GH0.tar.gz. Extracted Memory Use: 0.04M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for tabixpp-1.0.0.10_1 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- ===> tabixpp-1.0.0.10_1 depends on shared library: libhts.so - found (/usr/local/lib/libhts.so) SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> tabixpp-1.0.0.10_1 depends on shared library: libhts.so - found (/usr/local/lib/libhts.so) ===> Configuring for tabixpp-1.0.0.10_1 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for tabixpp-1.0.0.10_1 --- tabix.o --- c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -c tabix.cpp -Ihtslib tabix.cpp: In constructor 'Tabix::Tabix(std::__cxx11::string&)': tabix.cpp:15:32: warning: 'int bgzf_is_bgzf(const char*)' is deprecated: Use bgzf_compression() or hts_detect_format() instead [-Wdeprecated-declarations] if ( bgzf_is_bgzf(cfilename)!=1 ) ^ In file included from tabix.hpp:4, from tabix.cpp:1: /usr/local/include/htslib/bgzf.h:264:9: note: declared here int bgzf_is_bgzf(const char *fn) HTS_DEPRECATED("Use bgzf_compression() or hts_detect_format() instead"); ^~~~~~~~~~~~ tabix.cpp:15:32: warning: 'int bgzf_is_bgzf(const char*)' is deprecated: Use bgzf_compression() or hts_detect_format() instead [-Wdeprecated-declarations] if ( bgzf_is_bgzf(cfilename)!=1 ) ^ In file included from tabix.hpp:4, from tabix.cpp:1: /usr/local/include/htslib/bgzf.h:264:9: note: declared here int bgzf_is_bgzf(const char *fn) HTS_DEPRECATED("Use bgzf_compression() or hts_detect_format() instead"); ^~~~~~~~~~~~ --- libtabix.a --- --- libtabix.so.1 --- --- tabix++ --- --- libtabix.a --- ar rs libtabix.a tabix.o --- libtabix.so.1 --- c++ -shared -Wl,-soname,libtabix.so.1 -o libtabix.so.1 tabix.o --- tabix++ --- c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -o tabix++ main.cpp tabix.o -Ihtslib -L/usr/local/lib -L. -lhts -lpthread -lm -lz --- libtabix.a --- /usr/libexec/binutils227/elf/ar: creating libtabix.a SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for tabixpp-1.0.0.10_1 ===> Generating temporary packing list mkdir -p /construction/biology/tabixpp/stage/usr/local/bin mkdir -p /construction/biology/tabixpp/stage/usr/local/include mkdir -p /construction/biology/tabixpp/stage/usr/local/lib install tabix++ /construction/biology/tabixpp/stage/usr/local/bin install *.hpp /construction/biology/tabixpp/stage/usr/local/include install libtabix.a libtabix.so.1 /construction/biology/tabixpp/stage/usr/local/lib strip /construction/biology/tabixpp/stage/usr/local/bin/tabix++ /construction/biology/tabixpp/stage/usr/local/lib/libtabix.so.1 /bin/sh /xports/Mk/Scripts/relative_link.sh /construction/biology/tabixpp/stage/usr/local/lib/libtabix.so.1 /construction/biology/tabixpp/stage/usr/local/lib/libtabix.so ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) 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 tabixpp-1.0.0.10_1 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 00:00:07