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ariadne
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Mark as broken ports with no public distfiles
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2017-10-13 11:14:53 +00:00 |
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artemis
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Remove dead master sites
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2017-10-13 11:14:32 +00:00 |
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avida
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Try to bring some consistency to ports that have x86-specific pieces.
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2017-12-21 10:23:19 +00:00 |
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babel
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bcftools
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Add a USES=python:env, that will not add a dependency on Python.
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2017-12-04 15:27:29 +00:00 |
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bedtools
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- Fix build on 11+
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2017-12-22 12:27:14 +00:00 |
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biococoa
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Fix configure options for gnustep-make
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2017-12-03 12:23:53 +00:00 |
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blat
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- Update WWW
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2017-06-10 09:01:19 +00:00 |
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bowtie
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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bowtie2
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biology/bowtie2: Upgrade to 2.3.3.1
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2017-11-30 02:59:16 +00:00 |
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bwa
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[unbreak] biology/bwa: Remove old patch files
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2017-12-01 02:42:54 +00:00 |
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canu
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biology/canu: Replace += with = for depends
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2017-12-22 14:14:11 +00:00 |
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cd-hit
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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cdbfasta
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Update WWW: SF redirects to https://sourceforge.net/projects/<PROJECT_NAME>/
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2017-01-20 20:33:30 +00:00 |
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chemeq
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biology/chemeq: fix build on GCC (taken from dports)
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2016-12-18 04:22:26 +00:00 |
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clustalw
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consed
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- Replace Mk/bsd.linux-apps.mk and Mk/bsd.linux-rpm.mk with
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2016-09-05 19:23:42 +00:00 |
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crux
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For ports that are marked BROKEN on armv6, and also fail to build on
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2017-11-30 06:13:34 +00:00 |
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diamond
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biology/diamond: Update to version 0.9.14
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2017-12-13 16:31:53 +00:00 |
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emboss
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- update libgd to 2.2.2
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2016-07-20 09:33:31 +00:00 |
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fasta
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${RM} already has -f.
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2016-10-21 12:51:40 +00:00 |
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fasta3
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fastdnaml
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fastool
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Never set WRKSRC when using USE_GITHUB.
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2017-01-03 18:12:13 +00:00 |
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fastqc
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[new port] biology/fastqc: Quality control tool for high throughput sequence data
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2017-11-30 22:54:29 +00:00 |
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fasttree
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biology/fasttree: update to version 2.1.10
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2017-12-05 03:03:38 +00:00 |
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fastx-toolkit
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fluctuate
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garlic
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gff2ps
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gmap
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Try to bring some consistency to ports that have x86-specific pieces.
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2017-12-21 10:23:19 +00:00 |
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gperiodic
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Remove libintl.so.9 compatibility link that was added in r374303 to
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2016-12-08 19:52:19 +00:00 |
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grappa
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hmmer
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Back out previous commits by jbeich demand.
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2017-12-18 04:28:28 +00:00 |
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htslib
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biology/htslib biology/bcftools biology/samtools: Update to 1.6
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2017-10-25 10:19:50 +00:00 |
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iolib
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Mark some ports failing on power64. In cases where the error message
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2017-05-13 03:35:51 +00:00 |
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iqtree
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biology/iqtree: Fix distinfo after upstream re-released v1.6.1
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2017-12-29 17:14:07 +00:00 |
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jalview
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jellyfish
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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kallisto
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[new port] biology/kallisto: Quantify abundances of transcripts from RNA-Seq data
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2017-12-02 20:44:28 +00:00 |
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lagan
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lamarc
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biology/lamarc: Fix build on DF (taken from dports)
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2016-12-18 04:34:33 +00:00 |
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libgtextutils
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Use USES=pathfix where applicable.
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2016-10-21 15:21:13 +00:00 |
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libsbml
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- Update to 5.16.0
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2018-01-01 08:24:53 +00:00 |
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linux-foldingathome
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- Replace Mk/bsd.linux-apps.mk and Mk/bsd.linux-rpm.mk with
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2016-09-05 19:23:42 +00:00 |
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mafft
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mapm3
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migrate
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molden
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biology/molden: chase another intransparent upstream distfile upgrade.
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2017-11-01 03:48:30 +00:00 |
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mopac
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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mrbayes
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Update devel/readline to 7.0 patch 3
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2017-06-27 13:46:53 +00:00 |
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mummer
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- Fix installing scripts and support binaries
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2017-10-30 02:27:23 +00:00 |
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muscle
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Mark various leaf ports broken on aarch64, and, where appropriate, other
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2016-11-11 09:31:02 +00:00 |
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ncbi-blast+
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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ncbi-toolkit
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Remove libjpeg.so.11 compatibility link that was added in r374303 to
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2016-12-08 16:39:11 +00:00 |
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njplot
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biology/njplot: Add site in MASTER_SITES because package builders are
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2016-11-28 15:19:42 +00:00 |
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p5-AcePerl
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-ASN1-EntrezGene
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-Coordinate
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-Das
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-Das-Lite
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-FeatureIO
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Add p5-Bio-FeatureIO 1.6.905
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2017-09-15 19:17:17 +00:00 |
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p5-Bio-GFF3
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-Glite
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p5-Bio-Graphics
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-Bio-MAGETAB
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p5-Bio-NEXUS
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p5-Bio-Phylo
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Update to 2.0.1
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2017-12-26 23:20:28 +00:00 |
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p5-Bio-SCF
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p5-BioPerl
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Fix license information for portgs that use "the same license as Perl".
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2017-09-15 08:58:46 +00:00 |
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p5-BioPerl-Run
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Update to 1.007002
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2017-09-15 19:17:44 +00:00 |
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p5-transdecoder
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Never set WRKSRC when using USE_GITHUB.
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2017-01-03 18:12:13 +00:00 |
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p5-TrimGalore
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[new port] biology/p5-TrimGalore: Wrapper around Cutadapt and FastQC for adapter and quality trimming
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2017-12-09 13:23:32 +00:00 |
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paml
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Cleanup no longer needed CHMOD usage after r424898.
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2016-11-02 22:45:14 +00:00 |
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phrap
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phred
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phylip
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- Update to 3.697
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2018-01-01 08:40:22 +00:00 |
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phyml
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Disable the extra flag "-march=native" on arm to fix builds.
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2017-12-27 07:36:05 +00:00 |
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plink
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Mark as broken ports with no public distfiles
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2017-10-13 11:14:53 +00:00 |
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plinkseq
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Mark some ports failing on power64. In cases where the error message
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2017-05-13 03:35:51 +00:00 |
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primer3
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protomol
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Revision bump of all ports with USE_GL after consolidation of mesa-libs
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2017-05-23 05:03:14 +00:00 |
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psi88
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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py-biom-format
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biology/py-biom-format: Add required dependency on math/py-pandas and do
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2017-12-10 03:33:04 +00:00 |
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py-biopython
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Convert Python ports to FLAVORS.
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2017-11-30 15:50:30 +00:00 |
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py-bx-python
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Convert Python ports to FLAVORS.
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2017-11-30 15:50:30 +00:00 |
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py-cutadapt
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Fix packaging with python3
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2017-12-01 06:18:17 +00:00 |
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py-macs2
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biology/py-macs2: Restrict to python 2.7.
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2017-12-05 02:59:01 +00:00 |
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py-pysam
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Convert Python ports to FLAVORS.
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2017-11-30 15:50:30 +00:00 |
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pycogent
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- Those ports fail to build with python3
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2017-12-11 16:54:20 +00:00 |
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pyfasta
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Convert Python ports to FLAVORS.
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2017-11-30 15:50:30 +00:00 |
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python-nexus
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Convert Python ports to FLAVORS.
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2017-11-30 15:50:30 +00:00 |
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recombine
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When there is a do-install target, do not use a post-install target, do
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2016-07-19 11:04:13 +00:00 |
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ruby-bio
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- Update to 1.5.1
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2017-05-07 15:44:34 +00:00 |
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rubygem-bio
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Update to 1.5.1
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2017-02-06 23:03:17 +00:00 |
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samtools
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Add a USES=python:env, that will not add a dependency on Python.
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2017-12-04 15:27:29 +00:00 |
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seaview
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biology/seaview: Update version 4.6.1=>4.6.2
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2017-07-21 17:33:10 +00:00 |
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seqan
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- Update biology/seqan and bilogy/seqan-apps to version 2.2.0 [1]
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2016-09-14 19:38:58 +00:00 |
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seqan-apps
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Mark several ports newly broken on arm.
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2017-12-11 07:18:48 +00:00 |
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seqan1
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When there is a do-install target, do not use a post-install target, do
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2016-07-19 11:04:13 +00:00 |
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seqio
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- Switch to options helpers
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2017-11-26 09:00:21 +00:00 |
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seqtools
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biology/seqtools: re-try on powerpc* after r449590
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2017-12-12 03:38:56 +00:00 |
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sim4
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slclust
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Update WWW: SF redirects to https://sourceforge.net/projects/<PROJECT_NAME>/
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2017-01-20 20:33:30 +00:00 |
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ssaha
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Mark as broken ports with no public distfiles
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2017-10-13 11:14:53 +00:00 |
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t_coffee
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2017-09-10 20:55:38 +00:00 |
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tinker
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Fix the context of some patches so that they apply with stricter patch(1)
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2017-11-09 20:45:04 +00:00 |
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treepuzzle
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trimmomatic
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tRNAscan-SE
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Mark as broken ports with no public distfiles
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2017-10-13 11:14:53 +00:00 |
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ugene
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Remove USES=execinfo.
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2017-09-22 10:48:28 +00:00 |
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vcftools
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biology/vcftools: Upgrade to latest release 0.1.15
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2017-11-27 23:05:40 +00:00 |
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velvet
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wise
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Remove libintl.so.9 compatibility link that was added in r374303 to
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2016-12-08 19:52:19 +00:00 |
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xmolwt
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Remove libintl.so.9 compatibility link that was added in r374303 to
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2016-12-08 19:52:19 +00:00 |
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Makefile
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[new port] biology/canu: Single molecule sequence assembler
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2017-12-22 01:30:26 +00:00 |
