Baptiste Daroussin 2e55acc16d Convert to COPYTREE_SHARE ...

Use options helpers

2015-06-23 06:58:19 +00:00

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ariadne

6 ports categories: Remove $PTHREAD_LIBS

2015-03-24 16:01:21 +00:00

artemis

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avida

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babel

Remove $FreeBSD$ from patches files in categories a-j.

2015-05-22 13:34:20 +00:00

bcftools

New port: biology/bcftools

2015-06-05 21:01:13 +00:00

biococoa

MASTER_SITES cleanup.

2015-05-14 10:15:04 +00:00

biojava

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blat

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chemeq

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clustalw

MASTER_SITES cleanup.

2015-05-14 10:15:04 +00:00

consed

${ENV} does not exist, it is called ${SETENV}.

2015-04-13 14:49:37 +00:00

crux

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emboss

Fix packaging as a user (pkg already takes care of credentials)

2015-03-18 21:52:19 +00:00

fasta

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fasta3

- Update to 36.3.7a

2015-05-07 02:33:57 +00:00

fastdnaml

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fluctuate

Remove $FreeBSD$ from patches files in categories a-j.

2015-05-22 13:34:20 +00:00

garlic

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gff2ps

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gmap

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gperiodic

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grappa

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hmmer

- Remove deprecated option

2015-04-02 15:41:31 +00:00

htslib

Update ports in the [bcd]* categories to not use GH_COMMIT.

2015-05-06 15:16:53 +00:00

iolib

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jalview

Remove $FreeBSD$ from patches files in categories a-j.

2015-05-22 13:34:20 +00:00

lagan

- Fix shebangs

2015-06-11 10:17:24 +00:00

lamarc

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libsbml

- Update to 5.11.4

2015-05-12 08:58:14 +00:00

linux-foldingathome

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mafft

biology/mafft: update 7.149 -> 7.221

2015-06-03 17:04:19 +00:00

mapm3

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migrate

- Update to 3.6.9 and unbreak

2015-05-18 00:24:33 +00:00

molden

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mopac

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mrbayes

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mummer

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muscle

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ncbi-blast+

- Unbreak

2015-05-04 06:08:59 +00:00

ncbi-toolkit

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njplot

Mark as broken unfetchable ports

2015-04-05 17:55:35 +00:00

ortep3

Mark as broken unfetchable ports

2015-04-05 17:55:35 +00:00

p5-AcePerl

Reassign biology/ perl modules to perl@.

2015-05-08 18:12:36 +00:00

p5-Bio-ASN1-EntrezGene

Reassign biology/ perl modules to perl@.

2015-05-08 18:12:36 +00:00

p5-Bio-Das

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p5-Bio-Das-Lite

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p5-Bio-GFF3

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p5-Bio-Glite

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p5-Bio-Graphics

Some OCD cleanups on some of the perl@ ports.

2015-03-12 23:00:02 +00:00

p5-Bio-MAGETAB

Some OCD cleanups on some of the perl@ ports.

2015-03-12 23:00:02 +00:00

p5-Bio-NEXUS

- Add NO_ARCH

2015-05-31 13:37:20 +00:00

p5-Bio-Phylo

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p5-Bio-SCF

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p5-bioperl

- Fix shebangs

2015-05-30 12:31:59 +00:00

p5-bioperl-run

For the new USE_GITHUB with only GH_TAGNAME set default DISTNAME to

2015-03-20 20:07:50 +00:00

paml

Update biology/paml to 4.8a and unbreak.

2015-04-10 15:39:01 +00:00

phrap

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phred

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phylip

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phyml

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platon

biology/platon: Upgrade from 05 MAR 2015 => 30 MAR 2015 to unbreak

2015-04-11 15:41:22 +00:00

plink

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plinkseq

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povchem

Remove $FreeBSD$ from patches files in categories a-j.

2015-05-22 13:34:20 +00:00

primer3

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protomol

Convert to COPYTREE_SHARE

2015-06-23 06:58:19 +00:00

psi88

- Strip binaries

2015-06-03 17:27:08 +00:00

py-biopython

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pycogent

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pyfasta

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python-nexus

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recombine

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ruby-bio

biology/ruby-bio: mark broken with ruby 2.2

2015-04-03 13:50:38 +00:00

samtools

Update ports in the [bcd]* categories to not use GH_COMMIT.

2015-05-06 15:16:53 +00:00

seaview

biology/seaview: Update version 4.5.4=>4.5.4.4

2015-05-22 11:09:23 +00:00

seqan

biology/segan: Limit GCC to 4.8 while waiting for update

2015-03-21 11:53:27 +00:00

seqio

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seqtools

biology/seqtools: 4.33 -> 4.34.1

2015-05-06 20:30:53 +00:00

sim4

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ssaha

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t_coffee

MASTER_SITES cleanup.

2015-05-14 10:15:04 +00:00

tinker

Remove $FreeBSD$ from patches files in categories a-j.

2015-05-22 13:34:20 +00:00

treepuzzle

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treeviewx

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tRNAscan-SE

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ugene

Update Unipro UGENE to version 1.16.2.

2015-05-28 08:11:59 +00:00

velvet

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wise

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xmolwt

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Makefile

New port: biology/bcftools

2015-06-05 21:01:13 +00:00