------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/perl5-5.30.2.txz ===== Message from perl5-5.30.2: -- 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. Installing /packages/All/cd-hit-4.8.1_1.txz Installing /packages/All/p5-URI-1.76.txz SUCCEEDED 00:00:07 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-transdecoder-5.4.0_2 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-transdecoder-5.4.0_2 for building => SHA256 Checksum OK for transdecoder-TransDecoder-TransDecoder-v5.4.0_GH0.tar.gz. SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by p5-transdecoder-5.4.0_2 for building ===> Extracting for p5-transdecoder-5.4.0_2 => SHA256 Checksum OK for transdecoder-TransDecoder-TransDecoder-v5.4.0_GH0.tar.gz. Extracted Memory Use: 28.21M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for p5-transdecoder-5.4.0_2 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on package: perl5>=5.30.r1<5.31 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on package: perl5>=5.30.r1<5.31 - found ===> Configuring for p5-transdecoder-5.4.0_2 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> p5-transdecoder-5.4.0_2 depends on package: cd-hit>=4.6.1 - found ===> p5-transdecoder-5.4.0_2 depends on package: p5-URI>0 - found ===> p5-transdecoder-5.4.0_2 depends on package: perl5>=5.30.r1<5.31 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for p5-transdecoder-5.4.0_2 ===> p5-transdecoder-5.4.0_2 depends on package: cd-hit>=4.6.1 - found ===> p5-transdecoder-5.4.0_2 depends on package: p5-URI>0 - found ===> p5-transdecoder-5.4.0_2 depends on package: perl5>=5.30.r1<5.31 - found ===> Generating temporary packing list install -m 555 /construction/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/PerlLib/* /construction/biology/p5-transdecoder/stage/usr/local/lib/perl5/site_perl/transdecoder install -m 555 /construction/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/TransDecoder.LongOrfs /construction/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/TransDecoder.Predict /construction/biology/p5-transdecoder/stage/usr/local/bin install -m 555 /construction/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/util/*.pl /construction/biology/p5-transdecoder/stage/usr/local/libexec/transdecoder ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Notice: You have some Perl modules as dependencies but you do not have devel/p5-Module-CoreList installed, the perlcore QA check gets better results when using it, especially with older Perl versions. Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks Warning: Possible REINPLACE_CMD issues sed failed: file content unchanged from backup: util/ffindex_resume.pl sed failed: file content unchanged from backup: util/get_FL_accs.pl sed failed: file content unchanged from backup: util/refine_hexamer_scores.pl sed failed: file content unchanged from backup: util/uri_unescape.pl SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for p5-transdecoder-5.4.0_2 file sizes/checksums [42]: 0% file sizes/checksums [42]: 100% packing files [42]: 0% packing files [42]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:00:12