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authorJustin Lecher <jlec@gentoo.org>2016-01-07 15:10:39 +0100
committerJustin Lecher <jlec@gentoo.org>2016-01-07 15:10:39 +0100
commit2ef24e800910be3786e23a31a0217ba0f38659f8 (patch)
tree1d41a514e1c3d8ca9b7b5210a954f66347e1c31a /sci-biology
parentMerge remote-tracking branch 'github/master' (diff)
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Drop ChangeLogs in favour of commit messages
Signed-off-by: Justin Lecher <jlec@gentoo.org>
Diffstat (limited to 'sci-biology')
-rw-r--r--sci-biology/AlignGraph/ChangeLog12
-rw-r--r--sci-biology/Atlas-Link/ChangeLog10
-rw-r--r--sci-biology/Atlas/ChangeLog13
-rw-r--r--sci-biology/Atlas2/ChangeLog18
-rw-r--r--sci-biology/Atlas_GapFill/ChangeLog15
-rw-r--r--sci-biology/BBmap/ChangeLog51
-rw-r--r--sci-biology/BG7/ChangeLog14
-rw-r--r--sci-biology/BRAKER/ChangeLog11
-rw-r--r--sci-biology/BRANCH/ChangeLog16
-rw-r--r--sci-biology/BamView/ChangeLog21
-rw-r--r--sci-biology/BlastToSam/ChangeLog12
-rw-r--r--sci-biology/CONTIGuator/ChangeLog6
-rw-r--r--sci-biology/DisEMBL/ChangeLog9
-rw-r--r--sci-biology/EBARDenovo/ChangeLog14
-rw-r--r--sci-biology/ESTate/ChangeLog28
-rw-r--r--sci-biology/FLASH/ChangeLog9
-rw-r--r--sci-biology/GAL/ChangeLog20
-rw-r--r--sci-biology/Gambit/ChangeLog8
-rw-r--r--sci-biology/HTSeq/ChangeLog12
-rw-r--r--sci-biology/ICC/ChangeLog12
-rw-r--r--sci-biology/IMAGE/ChangeLog15
-rw-r--r--sci-biology/InterMine/ChangeLog16
-rw-r--r--sci-biology/Jannovar-bin/ChangeLog9
-rw-r--r--sci-biology/KaKs_Calculator/ChangeLog10
-rw-r--r--sci-biology/MaSuRCA/ChangeLog16
-rw-r--r--sci-biology/MagicViewer/ChangeLog10
-rw-r--r--sci-biology/MeV/ChangeLog7
-rw-r--r--sci-biology/MochiView/ChangeLog13
-rw-r--r--sci-biology/MuSeqBox/ChangeLog16
-rw-r--r--sci-biology/NGSTools/ChangeLog10
-rw-r--r--sci-biology/OBO-Edit/ChangeLog40
-rw-r--r--sci-biology/ONTO-PERL/ChangeLog11
-rw-r--r--sci-biology/ORFcor/ChangeLog13
-rw-r--r--sci-biology/RADtools/ChangeLog18
-rw-r--r--sci-biology/RSeQC/ChangeLog9
-rw-r--r--sci-biology/Ray/ChangeLog10
-rw-r--r--sci-biology/Rcorrector/ChangeLog18
-rw-r--r--sci-biology/SEECER/ChangeLog39
-rw-r--r--sci-biology/SSAKE/ChangeLog9
-rw-r--r--sci-biology/STAR/ChangeLog10
-rw-r--r--sci-biology/SolexaQA/ChangeLog9
-rw-r--r--sci-biology/StarORF/ChangeLog11
-rw-r--r--sci-biology/TransDecoder/ChangeLog75
-rw-r--r--sci-biology/Trinotate/ChangeLog15
-rw-r--r--sci-biology/VarScan/ChangeLog16
-rw-r--r--sci-biology/VelvetOptimiser/ChangeLog17
-rw-r--r--sci-biology/YASRA/ChangeLog23
-rw-r--r--sci-biology/abacas/ChangeLog12
-rw-r--r--sci-biology/abyss/ChangeLog17
-rw-r--r--sci-biology/aghermann/ChangeLog21
-rw-r--r--sci-biology/amos/ChangeLog51
-rw-r--r--sci-biology/ampliconnoise/ChangeLog12
-rw-r--r--sci-biology/angsd/ChangeLog10
-rw-r--r--sci-biology/ants/ChangeLog17
-rw-r--r--sci-biology/apollo/ChangeLog12
-rw-r--r--sci-biology/argo-bin/ChangeLog21
-rw-r--r--sci-biology/argo/ChangeLog9
-rw-r--r--sci-biology/artemis-bin/ChangeLog33
-rw-r--r--sci-biology/artemis/ChangeLog34
-rw-r--r--sci-biology/atsas/ChangeLog25
-rw-r--r--sci-biology/augustus/ChangeLog90
-rw-r--r--sci-biology/autoeditor/ChangeLog7
-rw-r--r--sci-biology/bambino/ChangeLog23
-rw-r--r--sci-biology/bambus/ChangeLog14
-rw-r--r--sci-biology/bamtools/ChangeLog30
-rw-r--r--sci-biology/barnacle/ChangeLog9
-rw-r--r--sci-biology/barrnap/ChangeLog33
-rw-r--r--sci-biology/bcftools/ChangeLog22
-rw-r--r--sci-biology/beagle/ChangeLog16
-rw-r--r--sci-biology/beaglecall/ChangeLog10
-rw-r--r--sci-biology/bedtools/ChangeLog27
-rw-r--r--sci-biology/biobambam/ChangeLog6
-rw-r--r--sci-biology/biopieces/ChangeLog21
-rw-r--r--sci-biology/blasr/ChangeLog19
-rw-r--r--sci-biology/blue/ChangeLog21
-rw-r--r--sci-biology/brat/ChangeLog13
-rw-r--r--sci-biology/breakdancer/ChangeLog23
-rw-r--r--sci-biology/bru2nii/ChangeLog30
-rw-r--r--sci-biology/bx-python/ChangeLog17
-rw-r--r--sci-biology/caftools/ChangeLog16
-rw-r--r--sci-biology/cast-bin/ChangeLog9
-rw-r--r--sci-biology/cd-hit-auxtools/ChangeLog14
-rw-r--r--sci-biology/cd-hit/ChangeLog12
-rw-r--r--sci-biology/cegma/ChangeLog14
-rw-r--r--sci-biology/cgview-bin/ChangeLog17
-rw-r--r--sci-biology/clover/ChangeLog26
-rw-r--r--sci-biology/cluster/ChangeLog30
-rw-r--r--sci-biology/clview/ChangeLog6
-rw-r--r--sci-biology/cnrun/ChangeLog6
-rw-r--r--sci-biology/codonw/ChangeLog31
-rw-r--r--sci-biology/conform-gt/ChangeLog10
-rw-r--r--sci-biology/conifer/ChangeLog9
-rw-r--r--sci-biology/consed/ChangeLog9
-rw-r--r--sci-biology/consed2gap/ChangeLog13
-rw-r--r--sci-biology/coral/ChangeLog9
-rw-r--r--sci-biology/cortex_var/ChangeLog13
-rw-r--r--sci-biology/cutadapt/ChangeLog23
-rw-r--r--sci-biology/dawg/ChangeLog16
-rw-r--r--sci-biology/dcmstack/ChangeLog24
-rw-r--r--sci-biology/discrover/ChangeLog49
-rw-r--r--sci-biology/dna2pep/ChangeLog12
-rw-r--r--sci-biology/ePCR/ChangeLog7
-rw-r--r--sci-biology/edena/ChangeLog9
-rw-r--r--sci-biology/epga/ChangeLog18
-rw-r--r--sci-biology/erpin/ChangeLog10
-rw-r--r--sci-biology/est2assembly/ChangeLog12
-rw-r--r--sci-biology/estscan/ChangeLog30
-rw-r--r--sci-biology/eval/ChangeLog27
-rw-r--r--sci-biology/exomiser-bin/ChangeLog9
-rw-r--r--sci-biology/exonerate-gff3/ChangeLog21
-rw-r--r--sci-biology/fastdnaml/ChangeLog14
-rw-r--r--sci-biology/fastqc/ChangeLog44
-rw-r--r--sci-biology/fastx_toolkit/ChangeLog26
-rw-r--r--sci-biology/ffindex/ChangeLog35
-rw-r--r--sci-biology/flexbar/ChangeLog10
-rw-r--r--sci-biology/freebayes/ChangeLog27
-rw-r--r--sci-biology/fsa/ChangeLog10
-rw-r--r--sci-biology/fsl/ChangeLog91
-rw-r--r--sci-biology/full_lengther_next/ChangeLog13
-rw-r--r--sci-biology/gap2caf/ChangeLog11
-rw-r--r--sci-biology/gbench/ChangeLog11
-rw-r--r--sci-biology/gbrowse/ChangeLog146
-rw-r--r--sci-biology/geneid/ChangeLog12
-rw-r--r--sci-biology/genepop/ChangeLog13
-rw-r--r--sci-biology/generecon/ChangeLog15
-rw-r--r--sci-biology/genometools/ChangeLog9
-rw-r--r--sci-biology/genomeview-bin/ChangeLog14
-rw-r--r--sci-biology/genseed/ChangeLog21
-rw-r--r--sci-biology/gfftools/ChangeLog9
-rw-r--r--sci-biology/gffutils/ChangeLog15
-rw-r--r--sci-biology/glean/ChangeLog13
-rw-r--r--sci-biology/grappa/ChangeLog10
-rw-r--r--sci-biology/hexamer/ChangeLog9
-rw-r--r--sci-biology/hmmer/ChangeLog13
-rw-r--r--sci-biology/hydra-sv/ChangeLog8
-rw-r--r--sci-biology/igv/ChangeLog64
-rw-r--r--sci-biology/inGAP-bin/ChangeLog12
-rw-r--r--sci-biology/jellyfish/ChangeLog50
-rw-r--r--sci-biology/jigsaw/ChangeLog13
-rw-r--r--sci-biology/jtreeview/ChangeLog6
-rw-r--r--sci-biology/kallisto/ChangeLog10
-rw-r--r--sci-biology/khmer/ChangeLog39
-rw-r--r--sci-biology/kmergenie/ChangeLog25
-rw-r--r--sci-biology/lastz/ChangeLog26
-rw-r--r--sci-biology/libgtextutils/ChangeLog16
-rw-r--r--sci-biology/lighter/ChangeLog13
-rw-r--r--sci-biology/mRNAmarkup/ChangeLog10
-rw-r--r--sci-biology/maker/ChangeLog49
-rw-r--r--sci-biology/manatee-igs/ChangeLog34
-rw-r--r--sci-biology/manatee-jcvi/ChangeLog21
-rw-r--r--sci-biology/mavid/ChangeLog12
-rw-r--r--sci-biology/merlin/ChangeLog11
-rw-r--r--sci-biology/metaseq/ChangeLog15
-rw-r--r--sci-biology/mgblast/ChangeLog13
-rw-r--r--sci-biology/minced/ChangeLog16
-rw-r--r--sci-biology/mip-scaffolder/ChangeLog17
-rw-r--r--sci-biology/mira/ChangeLog138
-rw-r--r--sci-biology/miranda/ChangeLog18
-rw-r--r--sci-biology/mne-python/ChangeLog8
-rw-r--r--sci-biology/mosaik/ChangeLog43
-rw-r--r--sci-biology/mothur/ChangeLog12
-rw-r--r--sci-biology/mreps/ChangeLog10
-rw-r--r--sci-biology/mrfast/ChangeLog11
-rw-r--r--sci-biology/mricron/ChangeLog18
-rw-r--r--sci-biology/mrsfast/ChangeLog10
-rw-r--r--sci-biology/ncbi-blast+/ChangeLog27
-rw-r--r--sci-biology/ncbi-tools++/ChangeLog146
-rw-r--r--sci-biology/nesoni/ChangeLog16
-rw-r--r--sci-biology/ngs_backbone/ChangeLog17
-rw-r--r--sci-biology/ngsview/ChangeLog21
-rw-r--r--sci-biology/nilearn/ChangeLog35
-rw-r--r--sci-biology/nistats/ChangeLog12
-rw-r--r--sci-biology/nrcl/ChangeLog14
-rw-r--r--sci-biology/nwalign/ChangeLog9
-rw-r--r--sci-biology/pairagon/ChangeLog17
-rw-r--r--sci-biology/parafly/ChangeLog22
-rw-r--r--sci-biology/pb-honey/ChangeLog10
-rw-r--r--sci-biology/pb-jelly/ChangeLog13
-rw-r--r--sci-biology/perlprimer/ChangeLog19
-rw-r--r--sci-biology/phusion/ChangeLog10
-rw-r--r--sci-biology/pileup/ChangeLog16
-rw-r--r--sci-biology/plinkseq/ChangeLog13
-rw-r--r--sci-biology/polyphen/ChangeLog9
-rw-r--r--sci-biology/primerD/ChangeLog16
-rw-r--r--sci-biology/proda/ChangeLog17
-rw-r--r--sci-biology/prokka/ChangeLog15
-rw-r--r--sci-biology/prot4EST/ChangeLog12
-rw-r--r--sci-biology/psychopy/ChangeLog17
-rw-r--r--sci-biology/pvmsx/ChangeLog7
-rw-r--r--sci-biology/pybedtools/ChangeLog15
-rw-r--r--sci-biology/pybrain/ChangeLog15
-rw-r--r--sci-biology/pyfaidx/ChangeLog12
-rw-r--r--sci-biology/pysam/ChangeLog27
-rw-r--r--sci-biology/pysurfer/ChangeLog24
-rw-r--r--sci-biology/quast/ChangeLog21
-rw-r--r--sci-biology/quicktree/ChangeLog18
-rw-r--r--sci-biology/quorum/ChangeLog15
-rw-r--r--sci-biology/repeatmasker-libraries/ChangeLog10
-rw-r--r--sci-biology/repeatmasker/ChangeLog35
-rw-r--r--sci-biology/reptile/ChangeLog9
-rw-r--r--sci-biology/rnaplex/ChangeLog11
-rw-r--r--sci-biology/ruffus/ChangeLog10
-rw-r--r--sci-biology/rum/ChangeLog15
-rw-r--r--sci-biology/sabre/ChangeLog15
-rw-r--r--sci-biology/salmon/ChangeLog28
-rw-r--r--sci-biology/samstat/ChangeLog12
-rw-r--r--sci-biology/samtools/ChangeLog20
-rw-r--r--sci-biology/scaffold_builder/ChangeLog29
-rw-r--r--sci-biology/scan_for_matches/ChangeLog10
-rw-r--r--sci-biology/scbi_blast/ChangeLog13
-rw-r--r--sci-biology/scbi_fasta/ChangeLog13
-rw-r--r--sci-biology/scbi_mapreduce/ChangeLog13
-rw-r--r--sci-biology/scbi_plot/ChangeLog12
-rw-r--r--sci-biology/screed/ChangeLog15
-rw-r--r--sci-biology/scythe/ChangeLog12
-rw-r--r--sci-biology/seqclean/ChangeLog17
-rw-r--r--sci-biology/seqtools/ChangeLog17
-rw-r--r--sci-biology/sequin/ChangeLog17
-rw-r--r--sci-biology/sff_dump/ChangeLog7
-rw-r--r--sci-biology/sga/ChangeLog15
-rw-r--r--sci-biology/sgp2/ChangeLog12
-rw-r--r--sci-biology/sickle/ChangeLog22
-rw-r--r--sci-biology/signalp/ChangeLog13
-rw-r--r--sci-biology/skewer-bin/ChangeLog13
-rw-r--r--sci-biology/smalt-bin/ChangeLog13
-rw-r--r--sci-biology/snap/ChangeLog9
-rw-r--r--sci-biology/snphylo/ChangeLog10
-rw-r--r--sci-biology/spm/ChangeLog29
-rw-r--r--sci-biology/sra_sdk/ChangeLog67
-rw-r--r--sci-biology/ssaha2-bin/ChangeLog11
-rw-r--r--sci-biology/stacks/ChangeLog19
-rw-r--r--sci-biology/staden/ChangeLog53
-rw-r--r--sci-biology/subread/ChangeLog13
-rw-r--r--sci-biology/swissknife/ChangeLog11
-rw-r--r--sci-biology/symap/ChangeLog12
-rw-r--r--sci-biology/tablet-bin/ChangeLog56
-rw-r--r--sci-biology/tablet/ChangeLog28
-rw-r--r--sci-biology/tagdust/ChangeLog9
-rw-r--r--sci-biology/tclust/ChangeLog10
-rw-r--r--sci-biology/tgicl/ChangeLog10
-rw-r--r--sci-biology/tigr-foundation-libs/ChangeLog8
-rw-r--r--sci-biology/tmhmm/ChangeLog13
-rw-r--r--sci-biology/tophat/ChangeLog89
-rw-r--r--sci-biology/trans-abyss/ChangeLog13
-rw-r--r--sci-biology/trf/ChangeLog9
-rw-r--r--sci-biology/trim_galore/ChangeLog23
-rw-r--r--sci-biology/trimmomatic/ChangeLog12
-rw-r--r--sci-biology/trinityrnaseq/ChangeLog53
-rw-r--r--sci-biology/trowel/ChangeLog9
-rw-r--r--sci-biology/twinscan/ChangeLog24
-rw-r--r--sci-biology/ugene/ChangeLog32
-rw-r--r--sci-biology/vague-bin/ChangeLog15
-rw-r--r--sci-biology/velvetk/ChangeLog16
-rw-r--r--sci-biology/wcd/ChangeLog36
-rw-r--r--sci-biology/weblogo/ChangeLog9
-rw-r--r--sci-biology/wgs-assembler/ChangeLog19
-rw-r--r--sci-biology/wise/ChangeLog10
-rw-r--r--sci-biology/zmsort/ChangeLog14
258 files changed, 0 insertions, 5167 deletions
diff --git a/sci-biology/AlignGraph/ChangeLog b/sci-biology/AlignGraph/ChangeLog
deleted file mode 100644
index 3bce88153..000000000
--- a/sci-biology/AlignGraph/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/AlignGraph
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/AlignGraph: Add github to remote-id in metadata.xml
-
-*AlignGraph-9999 (25 May 2015)
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +AlignGraph-9999.ebuild, +metadata.xml:
- sci-biology/AlignGraph: new package
diff --git a/sci-biology/Atlas-Link/ChangeLog b/sci-biology/Atlas-Link/ChangeLog
deleted file mode 100644
index 3a9de4e85..000000000
--- a/sci-biology/Atlas-Link/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/Atlas-Link
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*Atlas-Link-0.01 (04 Jul 2014)
-
- 04 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +Atlas-Link-0.01.ebuild, +metadata.xml:
- sci-biology/Atlas-Link: noted dependence, see bug #516366
-
diff --git a/sci-biology/Atlas/ChangeLog b/sci-biology/Atlas/ChangeLog
deleted file mode 100644
index ce67a302f..000000000
--- a/sci-biology/Atlas/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/Atlas
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> Atlas-2005.ebuild:
- Fix license
-
-*Atlas-2005 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +Atlas-2005.ebuild,
- +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/Atlas2/ChangeLog b/sci-biology/Atlas2/ChangeLog
deleted file mode 100644
index 834464dd5..000000000
--- a/sci-biology/Atlas2/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/Atlas2
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de> Atlas2-1.4.3.ebuild:
- sci-biology/Atlas2: Drop ruby19, shorten description, add missing dies
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de> metadata.xml:
- sci-biology/Atlas2: Add longdescription
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> Atlas2-1.4.3.ebuild:
- sci-biology/Atlas2: Fix ruby deps
-
-*Atlas2-1.4.3 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +Atlas2-1.4.3.ebuild, +metadata.xml:
- a skeleton for a new package, needs help from ruby team
diff --git a/sci-biology/Atlas_GapFill/ChangeLog b/sci-biology/Atlas_GapFill/ChangeLog
deleted file mode 100644
index 18b895350..000000000
--- a/sci-biology/Atlas_GapFill/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/Atlas_GapFill
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> Atlas_GapFill-2.2.ebuild:
- sci-biology/Atlas_GapFill: drop unknown dep
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> Atlas_GapFill-2.2.ebuild:
- Fix license
-
-*Atlas_GapFill-2.2 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +Atlas_GapFill-2.2.ebuild, +metadata.xml:
- initial ebuild
diff --git a/sci-biology/BBmap/ChangeLog b/sci-biology/BBmap/ChangeLog
deleted file mode 100644
index 15cd8fae3..000000000
--- a/sci-biology/BBmap/ChangeLog
+++ /dev/null
@@ -1,51 +0,0 @@
-# ChangeLog for sci-biology/BBmap
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*BBmap-35.82 (06 Jan 2016)
-
- 06 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +BBmap-35.82.ebuild,
- -BBmap-35.68.ebuild:
- sci-biology/BBmap: version bump
-
-*BBmap-35.68 (19 Nov 2015)
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +BBmap-35.68.ebuild,
- -BBmap-35.66.ebuild:
- sci-biology/BBmap: version bump
-
-*BBmap-34.97 (15 Nov 2015)
-
- 15 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +BBmap-34.97.ebuild,
- -BBmap-34.56.ebuild:
- sci-biology/BBmap: version bump; apply also the UnicodeToAscii.patch
-
- 12 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> BBmap-34.56.ebuild:
- sci-biology/BBmap: drop the call to eclipse jcompiler, added ~amd64 KEYWORD
-
- 12 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> BBmap-34.56.ebuild:
- sci-biology/BBmap: provided bug #542700 is resolved we can use mpi.jar from
- openmpi package
-
- 09 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> BBmap-34.56.ebuild:
- new package, needs openmpi with java support to provide mpi.jar, see bug
- #542700
-
-*BBmap-34.56 (05 Mar 2015)
-
- 05 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +BBmap-34.56.ebuild,
- -BBmap-31.40.ebuild:
- version bump
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> BBmap-31.40.ebuild:
- sci-biology/BBmap: fix SLOT operators
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> BBmap-31.40.ebuild:
- added license
-
-*BBmap-31.40 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +BBmap-31.40.ebuild, +metadata.xml:
- sci-biology/BBmap: a skeleton for a new package, needs help from java team
- for sure
diff --git a/sci-biology/BG7/ChangeLog b/sci-biology/BG7/ChangeLog
deleted file mode 100644
index 19f4c7c75..000000000
--- a/sci-biology/BG7/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/BG7
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> BG7-9999.ebuild:
- sci-biology/BG7: fix SLOT operators
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> BG7-9999.ebuild, +metadata.xml:
- Switch from git-2 to git-r3
-
-*BG7-9999 (29 Aug 2013)
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +BG7-9999.ebuild:
- Initial, not yet working ebuild.
diff --git a/sci-biology/BRAKER/ChangeLog b/sci-biology/BRAKER/ChangeLog
deleted file mode 100644
index 01a091838..000000000
--- a/sci-biology/BRAKER/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/BRAKER
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*BRAKER-20150330 (27 Apr 2015)
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +BRAKER-20150330.ebuild, +metadata.xml:
- sci-biology/BRAKER: new package; somehow RDEPENDs are installed wrongly: Can't
- locate Scalar/Util/Numeric.pm in @INC (you may need to install the
- Scalar::Util::Numeric module)
diff --git a/sci-biology/BRANCH/ChangeLog b/sci-biology/BRANCH/ChangeLog
deleted file mode 100644
index 5a53a534c..000000000
--- a/sci-biology/BRANCH/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/BRANCH
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/BRANCH: Add github to remote-id in metadata.xml
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> BRANCH-9999.ebuild:
- Move from git-2 to git-r3 eclass; add HOMEPAGE; be verbose during
- compilation; install docs
-
-*BRANCH-9999 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +BRANCH-9999.ebuild, +metadata.xml:
- initial ebuild
diff --git a/sci-biology/BamView/ChangeLog b/sci-biology/BamView/ChangeLog
deleted file mode 100644
index f41681e6d..000000000
--- a/sci-biology/BamView/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/BamView
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> BamView-1.2.11.ebuild,
- metadata.xml:
- sci-biology/BamView: fix SLOT operators
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> +metadata.xml,
- BamView-1.2.11.ebuild:
- added metadata.xml
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- BamView-1.2.11.ebuild:
- dropped KEYWORDS
-
-*BamView-1.2.11 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +BamView-1.2.11.ebuild:
- not sure if we need a separate package; is said to be part of Artemis bundle
diff --git a/sci-biology/BlastToSam/ChangeLog b/sci-biology/BlastToSam/ChangeLog
deleted file mode 100644
index 1cece175a..000000000
--- a/sci-biology/BlastToSam/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/BlastToSam
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/BlastToSam: Add github to remote-id in metadata.xml
-
-*BlastToSam-9999 (29 Apr 2015)
-
- 29 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +BlastToSam-9999.ebuild, +metadata.xml:
- sci-biology/BlastToSam: new package, works
diff --git a/sci-biology/CONTIGuator/ChangeLog b/sci-biology/CONTIGuator/ChangeLog
deleted file mode 100644
index 655c3f07f..000000000
--- a/sci-biology/CONTIGuator/ChangeLog
+++ /dev/null
@@ -1,6 +0,0 @@
-# ChangeLog for sci-biology/CONTIGuator
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> CONTIGuator-2.7.ebuild:
- added license
diff --git a/sci-biology/DisEMBL/ChangeLog b/sci-biology/DisEMBL/ChangeLog
deleted file mode 100644
index 68d62b922..000000000
--- a/sci-biology/DisEMBL/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/DisEMBL
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*DisEMBL-1.4 (06 Jan 2016)
-
- 06 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +DisEMBL-1.4.ebuild,
- +metadata.xml:
- sci-biology/DisEMBL: new package
diff --git a/sci-biology/EBARDenovo/ChangeLog b/sci-biology/EBARDenovo/ChangeLog
deleted file mode 100644
index ca9f331c2..000000000
--- a/sci-biology/EBARDenovo/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/EBARDenovo
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- EBARDenovo-1.2.2.ebuild:
- sci-biology/EBARDenovo: added a note about non-commercial use requirement
- mentioned in http://bioinformatics.oxfordjournals.org/content/29/8/1004.full
-
-*EBARDenovo-1.2.2 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +EBARDenovo-1.2.2.ebuild, +metadata.xml:
- sci-biology/EBARDenovo: new package
diff --git a/sci-biology/ESTate/ChangeLog b/sci-biology/ESTate/ChangeLog
deleted file mode 100644
index 47e53d3bd..000000000
--- a/sci-biology/ESTate/ChangeLog
+++ /dev/null
@@ -1,28 +0,0 @@
-# ChangeLog for sci-biology/ESTate
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ESTate-0.5.ebuild:
- sci-biology/ESTate: track file collision
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> ESTate-0.5.ebuild:
- Soma QA and polishing
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ESTate-0.5.ebuild:
- improve description and emphasize the ORF finder can overcome frameshifts in
- CDS
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ESTate-0.5.ebuild:
- use 'insinto' and not 'doins'
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ESTate-0.5.ebuild:
- add the probability matrices
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ESTate-0.5.ebuild:
- add the PhD thesis itself as documentation
-
-*ESTate-0.5 (09 Jan 2015)
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +ESTate-0.5.ebuild,
- +metadata.xml:
- sci-biology/ESTate: new package
diff --git a/sci-biology/FLASH/ChangeLog b/sci-biology/FLASH/ChangeLog
deleted file mode 100644
index f36fbae47..000000000
--- a/sci-biology/FLASH/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/FLASH
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*FLASH-1.2.9 (16 Mar 2014)
-
- 16 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +FLASH-1.2.9.ebuild,
- +metadata.xml:
- sci/biology/FLASH: new package
diff --git a/sci-biology/GAL/ChangeLog b/sci-biology/GAL/ChangeLog
deleted file mode 100644
index 3cfe9d424..000000000
--- a/sci-biology/GAL/ChangeLog
+++ /dev/null
@@ -1,20 +0,0 @@
-# ChangeLog for sci-biology/GAL
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 04 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> GAL-0.2.2.ebuild:
- sci-biology/GAL: fix some package names in DEPEND to match actual CPAN
- packages
-
- 02 Jan 2016; Andreas K. Huettel <dilfridge@gentoo.org> files/Build.PL.patch:
- Force systemwide installation by removing all the manual build fiddling
-
- 02 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> GAL-0.2.2.ebuild:
- sci-biology/GAL: add another perl DEPENDency
-
-*GAL-0.2.1 (31 Dec 2015)
-*GAL-0.2.2 (31 Dec 2015)
-
- 31 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +GAL-0.2.1.ebuild,
- +GAL-0.2.2.ebuild, +metadata.xml:
- sci-biology/GAL: new package, needed by trinityrnaseq and maker
diff --git a/sci-biology/Gambit/ChangeLog b/sci-biology/Gambit/ChangeLog
deleted file mode 100644
index 369fd7b88..000000000
--- a/sci-biology/Gambit/ChangeLog
+++ /dev/null
@@ -1,8 +0,0 @@
-# ChangeLog for sci-biology/Gambit
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> Gambit-0.4.145.ebuild,
- metadata.xml:
- Update to new qt deps names
-
diff --git a/sci-biology/HTSeq/ChangeLog b/sci-biology/HTSeq/ChangeLog
deleted file mode 100644
index ca0c1795c..000000000
--- a/sci-biology/HTSeq/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/HTSeq
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 14 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> HTSeq-0.6.1.ebuild:
- mention also Bowtie file format
-
-*HTSeq-0.6.1 (14 Feb 2015)
-
- 14 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +HTSeq-0.6.1.ebuild,
- +metadata.xml:
- new python API
diff --git a/sci-biology/ICC/ChangeLog b/sci-biology/ICC/ChangeLog
deleted file mode 100644
index 85de47b9f..000000000
--- a/sci-biology/ICC/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/ICC
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> ICC-2.0.1.ebuild:
- Fix license
-
-*ICC-2.0.1 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +ICC-2.0.1.ebuild:
- initial ebuild, perl installation steps need to be fixed
-
diff --git a/sci-biology/IMAGE/ChangeLog b/sci-biology/IMAGE/ChangeLog
deleted file mode 100644
index f221aba9e..000000000
--- a/sci-biology/IMAGE/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/IMAGE
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 27 Oct 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> IMAGE-2.4.1.ebuild:
- sci-biology/IMAGE: improve package descr
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> IMAGE-2.4.1.ebuild:
- added license
-
-*IMAGE-2.4.1 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +IMAGE-2.4.1.ebuild, +metadata.xml:
- a skeleton for a new package
diff --git a/sci-biology/InterMine/ChangeLog b/sci-biology/InterMine/ChangeLog
deleted file mode 100644
index 161118182..000000000
--- a/sci-biology/InterMine/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/InterMine
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/InterMine: Add github to remote-id in metadata.xml
-
- 10 Jan 2015; Marius Brehler <marbre@linux.sungazer.de>
- InterMine-0.98.ebuild:
- Fix license, homepage and move from git-2 to git-r3
-
-*InterMine-0.98 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +InterMine-0.98.ebuild, +metadata.xml:
- initial ebuild
diff --git a/sci-biology/Jannovar-bin/ChangeLog b/sci-biology/Jannovar-bin/ChangeLog
deleted file mode 100644
index e548c0157..000000000
--- a/sci-biology/Jannovar-bin/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/Jannovar-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*Jannovar-bin-20150503 (05 May 2015)
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +Jannovar-bin-20150503.ebuild, +metadata.xml:
- sci-biology/Jannovar-bin: new package
diff --git a/sci-biology/KaKs_Calculator/ChangeLog b/sci-biology/KaKs_Calculator/ChangeLog
deleted file mode 100644
index ed7a1b8c6..000000000
--- a/sci-biology/KaKs_Calculator/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/KaKs_Calculator
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*KaKs_Calculator-1.2 (21 Mar 2015)
-
- 21 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +KaKs_Calculator-1.2.ebuild, +metadata.xml:
- sci-biology/KaKs_Calculator: new package but code does not compile; awaiting
- some answer from upstream http://cbb.big.ac.cn/Zhang_Zhang
diff --git a/sci-biology/MaSuRCA/ChangeLog b/sci-biology/MaSuRCA/ChangeLog
deleted file mode 100644
index 037399200..000000000
--- a/sci-biology/MaSuRCA/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/MaSuRCA
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*MaSuRCA-2.3.2b (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +MaSuRCA-2.3.2b.ebuild, -MaSuRCA-2.1.0.ebuild:
- sci-biology/MaSuRCA: version bump
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> MaSuRCA-2.1.0.ebuild:
- added license
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ChangeLog:
- new package but with a missing LICENSE and needs tweak to get all configure's
- running
diff --git a/sci-biology/MagicViewer/ChangeLog b/sci-biology/MagicViewer/ChangeLog
deleted file mode 100644
index 574092dc2..000000000
--- a/sci-biology/MagicViewer/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/MagicViewer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> MagicViewer-1.2.1.ebuild,
- metadata.xml:
- sci-biology/MagicViewer: fix SLOT operators
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> MagicViewer-1.2.1.ebuild:
- added license
diff --git a/sci-biology/MeV/ChangeLog b/sci-biology/MeV/ChangeLog
deleted file mode 100644
index 8265b964c..000000000
--- a/sci-biology/MeV/ChangeLog
+++ /dev/null
@@ -1,7 +0,0 @@
-# ChangeLog for sci-biology/MeV
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> +metadata.xml,
- MeV-4.8.1.ebuild:
- added metadata.xml
diff --git a/sci-biology/MochiView/ChangeLog b/sci-biology/MochiView/ChangeLog
deleted file mode 100644
index 482746ebb..000000000
--- a/sci-biology/MochiView/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/MochiView
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> MochiView-1.45.ebuild:
- Fix license
-
-*MochiView-1.45 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +MochiView-1.45.ebuild, +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/MuSeqBox/ChangeLog b/sci-biology/MuSeqBox/ChangeLog
deleted file mode 100644
index fefc7c842..000000000
--- a/sci-biology/MuSeqBox/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/MuSeqBox
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*MuSeqBox-5.4 (05 Jan 2016)
-
- 05 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +MuSeqBox-5.4.ebuild, -MuSeqBox-5.3.ebuild:
- sci-biology/MuSeqBox: corrected package version number; added a note about
- github location provided by Volker Brendel
-
-*MuSeqBox-5.3 (05 Jan 2016)
-
- 05 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +MuSeqBox-5.3.ebuild, +metadata.xml:
- sci-biology/MuSeqBox: new package
diff --git a/sci-biology/NGSTools/ChangeLog b/sci-biology/NGSTools/ChangeLog
deleted file mode 100644
index fb4ee89e4..000000000
--- a/sci-biology/NGSTools/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/NGSTools
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*NGSTools-2.0.5 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +NGSTools-2.0.5.ebuild, +metadata.xml:
- new package, needs java team help
-
diff --git a/sci-biology/OBO-Edit/ChangeLog b/sci-biology/OBO-Edit/ChangeLog
deleted file mode 100644
index a314c332e..000000000
--- a/sci-biology/OBO-Edit/ChangeLog
+++ /dev/null
@@ -1,40 +0,0 @@
-# ChangeLog for sci-biology/OBO-Edit
-# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- OBO-Edit-2.1.1.6.ebuild:
- adjust PATH to point to the installation place, few comment lines changes
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- OBO-Edit-2.1.1.6.ebuild:
- added the addpredict() trick from tablet-bin*.ebuild to make the ACCESS DENIED
- messages quiet, bugs #402507 (learned from bug #387227)
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- OBO-Edit-2.1.1.6.ebuild:
- added the addpredict() trick from tablet-bin*.ebuild to make the ACCESS
- DENIED messages quiet, bugs #402507 (learned from bug #387227)
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- OBO-Edit-2.1.1.6.ebuild:
- sci-biology/OBO-Edit: more attempts to get rid of sandbox ACCESS VIOLATION
- SUMMARY errors
-
-*OBO-Edit-2.1.1.6 (07 Feb 2012)
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +OBO-Edit-2.1.1.6.ebuild, files/response.varfile:
- more attempts to get rid of sandbox ACCESS VIOLATION SUMMARY errors
-
-*OBO-Edit-2.1.0 (26 Dec 2011)
-
- 26 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- -OBO-Edit-2.1_beta8.ebuild, +OBO-Edit-2.1.0.ebuild, files/response.varfile:
- Sync ebuild to use install4j as in sci-biology/tablet-bin. Awaiting a fix
- from upstream so that the installer really respects --destination or -dir
- options.
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> OBO-Edit-2.1_beta8.ebuild:
- Cleaned ebuild
-
diff --git a/sci-biology/ONTO-PERL/ChangeLog b/sci-biology/ONTO-PERL/ChangeLog
deleted file mode 100644
index 7d1d8c96d..000000000
--- a/sci-biology/ONTO-PERL/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/ONTO-PERL
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 24 Sep 2014; Justin Lecher <jlec@gentoo.org> -ONTO-PERL-1.31.ebuild,
- +ONTO-PERL-1.41.ebuild, metadata.xml:
- Version Bump; Bump to EAPI=5
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> ONTO-PERL-1.31.ebuild:
- Cleaned ebuild, 'http://search.cpan.org/CPAN' found in thirdpartymirrors
-
diff --git a/sci-biology/ORFcor/ChangeLog b/sci-biology/ORFcor/ChangeLog
deleted file mode 100644
index e30d24600..000000000
--- a/sci-biology/ORFcor/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/ORFcor
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ORFcor-20130507.ebuild:
- sci-biology/ORFcor: more cleanup
-
-*ORFcor-20130507 (09 Mar 2015)
-
- 09 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ORFcor-20130507.ebuild, +metadata.xml:
- new package, working ebuild
diff --git a/sci-biology/RADtools/ChangeLog b/sci-biology/RADtools/ChangeLog
deleted file mode 100644
index 04339886e..000000000
--- a/sci-biology/RADtools/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/RADtools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- RADtools-1.2.4.ebuild, RADtools-9999.ebuild:
- sci-biology/RADtools: manually install perl modules int PERL5INC path
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> RADtools-1.2.4.ebuild,
- RADtools-9999.ebuild:
- removed empty line
-
-*RADtools-1.2.4 (28 Mar 2014)
-*RADtools-9999 (28 Mar 2014)
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +RADtools-1.2.4.ebuild, +RADtools-9999.ebuild, +metadata.xml:
- sci-biology/RADtools: new package
diff --git a/sci-biology/RSeQC/ChangeLog b/sci-biology/RSeQC/ChangeLog
deleted file mode 100644
index 0633f404e..000000000
--- a/sci-biology/RSeQC/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/RSeQC
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*RSeQC-2.6.1 (24 Jun 2015)
-
- 24 Jun 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +RSeQC-2.6.1.ebuild,
- +metadata.xml:
- sci-biology/RSeQC: new package
diff --git a/sci-biology/Ray/ChangeLog b/sci-biology/Ray/ChangeLog
deleted file mode 100644
index 271c8405a..000000000
--- a/sci-biology/Ray/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/Ray
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*Ray-2.3.0 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +Ray-2.3.0.ebuild,
- +metadata.xml:
- sci-biology/Ray: a new package, maybe needs decent inspection from cluster
- herd and also java
diff --git a/sci-biology/Rcorrector/ChangeLog b/sci-biology/Rcorrector/ChangeLog
deleted file mode 100644
index 97497f22e..000000000
--- a/sci-biology/Rcorrector/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/Rcorrector
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- Rcorrector-9999.ebuild:
- sci-biology/Rcorrector: add einfo() message that default kmer size 23 is
- suboptimal
-
- 15 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- Rcorrector-9999.ebuild:
- sci-biology/Rcorrector: respect CXXFLAGS
-
-*Rcorrector-9999 (13 Nov 2015)
-
- 13 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +Rcorrector-9999.ebuild, +metadata.xml:
- sci-biology/Rcorrector: new package
diff --git a/sci-biology/SEECER/ChangeLog b/sci-biology/SEECER/ChangeLog
deleted file mode 100644
index 1302cab1e..000000000
--- a/sci-biology/SEECER/ChangeLog
+++ /dev/null
@@ -1,39 +0,0 @@
-# ChangeLog for sci-biology/SEECER
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- SEECER-0.1.3-r2.ebuild:
- sci-biology/SEECER: add einfo() message that default kmer size 17 is
- suboptimal
-
- 13 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- SEECER-0.1.3-r2.ebuild, files/remove-hardcoded-paths.patch:
- sci-biology/SEECER: patch crappy shellscripts to at leats die on error;
- require jellyfish-1.1.11
-
-*SEECER-0.1.3-r2 (13 Nov 2015)
-
- 13 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +SEECER-0.1.3-r2.ebuild, +files/remove-hardcoded-paths.patch,
- -SEECER-0.1.3-r1.ebuild:
- sci-biology/SEECER: remove hardcoded paths
-
- 12 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- SEECER-0.1.3-r1.ebuild:
- sci-biology/SEECER: install also the main program wrapper
-
-*SEECER-0.1.3-r1 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +SEECER-0.1.3-r1.ebuild, +files/replace_ids.cc, -SEECER-0.1.3.ebuild:
- sci-biology/SEECER: added upstream 'patch'; do more proper install process
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> SEECER-0.1.3.ebuild:
- Fix license
-
-*SEECER-0.1.3 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +SEECER-0.1.3.ebuild, +metadata.xml:
- initial ebuild
diff --git a/sci-biology/SSAKE/ChangeLog b/sci-biology/SSAKE/ChangeLog
deleted file mode 100644
index 63092d6a3..000000000
--- a/sci-biology/SSAKE/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/SSAKE
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*SSAKE-3.8.2 (17 Apr 2015)
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +SSAKE-3.8.2.ebuild,
- +metadata.xml:
- sci-biology/SSAKE: new package
diff --git a/sci-biology/STAR/ChangeLog b/sci-biology/STAR/ChangeLog
deleted file mode 100644
index 7286865a6..000000000
--- a/sci-biology/STAR/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/STAR
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*STAR-2.4.1c (05 May 2015)
-*STAR-9999 (05 May 2015)
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +STAR-2.4.1c.ebuild,
- +STAR-9999.ebuild, +metadata.xml:
- sci-biology/STAR: new package
diff --git a/sci-biology/SolexaQA/ChangeLog b/sci-biology/SolexaQA/ChangeLog
deleted file mode 100644
index a3501fce5..000000000
--- a/sci-biology/SolexaQA/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/SolexaQA
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*SolexaQA-2.2 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +SolexaQA-2.2.ebuild, +metadata.xml:
- sci-biology/SolexaQA: new package
diff --git a/sci-biology/StarORF/ChangeLog b/sci-biology/StarORF/ChangeLog
deleted file mode 100644
index 477e5a368..000000000
--- a/sci-biology/StarORF/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/StarORF
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*StarORF-9999 (06 May 2015)
-
- 06 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +StarORF-9999.ebuild, +metadata.xml:
- sci-biology/StarORF: new package, somehow build.xml needs dev-
- java/jreleaseinfo but it does not see it: 'build.xml:3: taskdef class
- ch.oscg.jreleaseinfo.anttask.JReleaseInfoAntTask cannot be found'
diff --git a/sci-biology/TransDecoder/ChangeLog b/sci-biology/TransDecoder/ChangeLog
deleted file mode 100644
index e9110b4de..000000000
--- a/sci-biology/TransDecoder/ChangeLog
+++ /dev/null
@@ -1,75 +0,0 @@
-# ChangeLog for sci-biology/TransDecoder
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de>
- TransDecoder-2.0.1.ebuild:
- sci-biology/TransDecoder: Fix minorsyn, add missing die
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- TransDecoder-2.0.1.ebuild:
- sci-biology/TransDecoder: note that Pfam-AB was discontinued
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- TransDecoder-2.0.1.ebuild:
- sci-biology/TransDecoder: update homepage
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/TransDecoder-2.0.1__fix_paths.patch, -files/TransDecoder.patch,
- TransDecoder-2.0.1.ebuild, files/pfam_runner.pl.patch:
- sci-biology/TransDecoder: install properly perl modules; fix PERL5INC paths by
- adding TransDecoder::, ebuild cleanup
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/TransDecoder: Add github to remote-id in metadata.xml
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- transdecoder-2.0.1.ebuild:
- sci-biology/transdecoder: more ebuild cleanup
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- transdecoder-2.0.1.ebuild:
- sci-biology/transdecoder: ebuild cleanup
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- -transdecoder-20140704.ebuild, transdecoder-2.0.1.ebuild:
- sci-biology/transdecoder: drop old
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- transdecoder-2.0.1.ebuild, transdecoder-20140704.ebuild:
- sci-biology/transdecoder: fixed installation of perl-related files
-
- 19 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- transdecoder-2.0.1.ebuild:
- dropped hmmer dependency altogether, added pkg_postinst() with
- usage/dependency info
-
-*transdecoder-2.0.1 (19 Mar 2015)
-
- 19 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +transdecoder-2.0.1.ebuild, transdecoder-20140704.ebuild:
- removing KEYWORDS until the perl files are installed to some other place. At
- the moment I get: 'perl-module.eclass: Suspicious environment values found.
- PERL5LIB="/usr/lib64/perl5/vendor_perl/5.18.2/TransDecoder"'
-
- 15 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- transdecoder-20140704.ebuild:
- drop hmmer-3 dependency, it is an optional dependency only
-
- 10 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- transdecoder-20140704.ebuild:
- install *.pm into PERL5LIB/TransDecoder and pass that via env.d
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/TransDecoder.patch, +files/pfam_runner.pl.patch,
- transdecoder-20140704.ebuild:
- sci-biology/transdecoder: added patches so that we use PATH to loclate
- binaries and not in a local subdirectory named 'util', drop sys-
- cluster/openmpi requirement, it does not link against it all all, this is a
- bunch of perl and shell scripts
-
-*transdecoder-20140704 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +transdecoder-20140704.ebuild:
- sci-biology/transdecoder: new package
diff --git a/sci-biology/Trinotate/ChangeLog b/sci-biology/Trinotate/ChangeLog
deleted file mode 100644
index d0030f93f..000000000
--- a/sci-biology/Trinotate/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/Trinotate
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> Trinotate-2.0.1.ebuild:
- sci-biology/Trinotate: Fix whitespaces
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/Trinotate: Add github to remote-id in metadata.xml
-
-*Trinotate-2.0.1 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +Trinotate-2.0.1.ebuild, +metadata.xml:
- sci-biology/Trinotate: new package
diff --git a/sci-biology/VarScan/ChangeLog b/sci-biology/VarScan/ChangeLog
deleted file mode 100644
index d6adc5484..000000000
--- a/sci-biology/VarScan/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/VarScan
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*VarScan-2.3.7 (13 Mar 2015)
-
- 13 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +VarScan-2.3.7.ebuild, -VarScan-2.3.6.ebuild:
- fix SRC_URI to fetch real source code, ebuild improvements but not working
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> VarScan-2.3.6.ebuild,
- metadata.xml:
- sci-biology/VarScan: fix SLOT operators
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> VarScan-2.3.6.ebuild:
- fixed DESCRIPTION
diff --git a/sci-biology/VelvetOptimiser/ChangeLog b/sci-biology/VelvetOptimiser/ChangeLog
deleted file mode 100644
index fa985328f..000000000
--- a/sci-biology/VelvetOptimiser/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/VelvetOptimiser
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- VelvetOptimiser-2.2.5.ebuild:
- sci-biology/VelvetOptimiser: fixed installation of perl-related files
-
- 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- VelvetOptimiser-2.2.5.ebuild:
- sci-biology/VelvetOptimiser: add requirement for threaded perl
-
-*VelvetOptimiser-2.2.5 (15 Apr 2014)
-
- 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +VelvetOptimiser-2.2.5.ebuild, +metadata.xml:
- sci-biology/VelvetOptimiser: new package
diff --git a/sci-biology/YASRA/ChangeLog b/sci-biology/YASRA/ChangeLog
deleted file mode 100644
index 8892c1213..000000000
--- a/sci-biology/YASRA/ChangeLog
+++ /dev/null
@@ -1,23 +0,0 @@
-# ChangeLog for sci-biology/YASRA
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*YASRA-2.33 (28 Mar 2014)
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +YASRA-2.33.ebuild,
- -YASRA-2.32.ebuild:
- sci-biology/YASRA: version bump to a version without compile errors when
- gcc-4.8 is used
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -YASRA-2.1.ebuild,
- +YASRA-2.32.ebuild:
- Version Bump; add KEYWORDS
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> YASRA-2.1.ebuild, metadata.xml:
- Drop keywords as deps are unkeyworded
-
-*YASRA-2.1 (17 Jan 2012)
-
- 17 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +YASRA-2.1.ebuild,
- +metadata.xml:
- initial ebuild
diff --git a/sci-biology/abacas/ChangeLog b/sci-biology/abacas/ChangeLog
deleted file mode 100644
index c7b77d97b..000000000
--- a/sci-biology/abacas/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/abacas
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> abacas-1.3.1.ebuild:
- sci-biology/abacas: clarify description
-
-*abacas-1.3.1 (31 Mar 2015)
-
- 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +abacas-1.3.1.ebuild, +metadata.xml:
- sci-biology/abacas: new package
diff --git a/sci-biology/abyss/ChangeLog b/sci-biology/abyss/ChangeLog
deleted file mode 100644
index 8a0502e53..000000000
--- a/sci-biology/abyss/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/abyss
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*abyss-1.3.3-r1 (23 May 2015)
-*abyss-1.3.4-r1 (23 May 2015)
-*abyss-1.3.6-r1 (23 May 2015)
-
- 23 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +abyss-1.3.3-r1.ebuild, +abyss-1.3.4-r1.ebuild, +abyss-1.3.6-r1.ebuild,
- +files/abyss-1.3.3-ac_prog_ar.patch, +files/abyss-1.3.3-gcc-4.7.patch,
- +files/abyss-1.3.3-samtoafg.patch, +files/abyss-1.3.4-gcc-4.7.patch,
- +files/abyss-1.3.4-samtoafg.patch, +files/abyss-1.3.6-ac_prog_ar.patch,
- +files/abyss-1.3.6-gcc-4.7.patch, +files/abyss-1.3.6-samtoafg.patch,
- +metadata.xml:
- sci-biology/amos: bring in upstream patch to cope with secondary alignments
- from 'bwa mem -M'
diff --git a/sci-biology/aghermann/ChangeLog b/sci-biology/aghermann/ChangeLog
deleted file mode 100644
index a9cbf767e..000000000
--- a/sci-biology/aghermann/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/aghermann
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Jun 2015; Andrei Zavada <johnhommer@gmail.com> aghermann-1.0.5.ebuild:
- New upstream version.
-
- 10 Apr 2015; Andrei Zavada <johnhommer@gmail.com> aghermann-1.0.4.ebuild:
- New upstream version.
-
- 28 Mar 2015; Andrei Zavada <johnhommer@gmail.com> aghermann-1.0.3-r1.ebuild:
- Install binaries into /usr/bin not /bin.
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> aghermann-1.0.3.ebuild:
- sci-biology/aghermann: Fix slot operators
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> aghermann-1.0.3.ebuild:
- sci-biology/aghermann: Fix indention and use virtual for pkgconfig
-
- 17 Feb 2015; Andrei Zavada <johnhommer@gmail.com> aghermann-1.0.3.ebuild:
- Initial packaging for gentoo.
diff --git a/sci-biology/amos/ChangeLog b/sci-biology/amos/ChangeLog
deleted file mode 100644
index 363a52d9b..000000000
--- a/sci-biology/amos/ChangeLog
+++ /dev/null
@@ -1,51 +0,0 @@
-# ChangeLog for sci-biology/amos
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- amos-3.1.0-r2.ebuild, amos-9999.ebuild:
- added dev-qt/qt3support:4 to DEPEND because 'scanelf -qn /usr/bin/hawkeye'
- confirms libQt3Support.so is used (thanks to Davide Pesavento pesa@g.o)
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- amos-3.1.0-r2.ebuild, amos-9999.ebuild:
- sci-biology/amos: fixed installation of perl-related files
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- amos-3.1.0-r2.ebuild, amos-9999.ebuild:
- sci-biology/amos: use doins instead of dobin
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- amos-3.1.0-r2.ebuild, amos-9999.ebuild:
- sci-biology/amos: fixed installation of perl-related files
-
-*amos-3.1.0-r2 (31 Mar 2015)
-
- 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +amos-3.1.0-r2.ebuild, +files/amos-3.1.0-gcc-4.7.patch,
- +files/amos-3.1.0-goBambus2.py-indent-and-cleanup.patch, amos-9999.ebuild:
- sci-biology/amos: fix installation process and dependencies
-
- 29 Dec 2013; Justin Lecher <jlec@gentoo.org> -amos-3.1.0-r1.ebuild,
- amos-9999.ebuild, -files/amos-3.1.0-gcc-4.7.patch,
- -files/amos-3.1.0-goBambus2.py-indent-and-cleanup.patch,
- -files/amos.m4.patch:
- Move to tree
-
-*amos-3.1.0-r1 (11 Sep 2013)
-
- 11 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +amos-3.1.0-r1.ebuild, +files/amos-3.1.0-gcc-4.7.patch,
- +files/amos-3.1.0-goBambus2.py-indent-and-cleanup.patch:
- Fix indentation error and remove unused import of string module (there could
- be more cleanup as suggested by pychecker). Credits to
- http://sourceforge.net/p/amos/support-requests/1/
-
- 19 Mar 2013; Justin Lecher <jlec@gentoo.org> amos-9999.ebuild:
- Bump to latest git HEAD, fixes qt problems, #348031
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> amos-9999.ebuild, metadata.xml:
- Update to new qt deps names
-
- 22 May 2012; Justin Lecher <jlec@gentoo.org> amos-9999.ebuild:
- Bump to EAPI=4, remove unnecessary bits
diff --git a/sci-biology/ampliconnoise/ChangeLog b/sci-biology/ampliconnoise/ChangeLog
deleted file mode 100644
index d38581dae..000000000
--- a/sci-biology/ampliconnoise/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/ampliconnoise
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> ampliconnoise-1.27.ebuild:
- sci-biology/ampliconnoise: drop Useless blank line on last line
-
-*ampliconnoise-1.27 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ampliconnoise-1.27.ebuild:
- initial ebuild
diff --git a/sci-biology/angsd/ChangeLog b/sci-biology/angsd/ChangeLog
deleted file mode 100644
index 11e60db8a..000000000
--- a/sci-biology/angsd/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/angsd
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*angsd-9999 (20 Mar 2015)
-
- 20 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +angsd-9999.ebuild,
- +metadata.xml:
- sci-biology/angsd: new package, -9999 compiles fine, need a snapshot for 0.700
- version or whichever
diff --git a/sci-biology/ants/ChangeLog b/sci-biology/ants/ChangeLog
deleted file mode 100644
index 004b132fe..000000000
--- a/sci-biology/ants/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/ants
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 28 Jul 2015; <chymera@gentoo.org> ants-9999.ebuild:
- replaced explicit command by default call
-
- 27 Jul 2015; <chymera@gentoo.org> ants-9999.ebuild:
- using multilib eclass
-
- 26 Jul 2015; <chymera@gentoo.org> ants-9999.ebuild:
- specifying lib dir adequaltely for multilib setups
-
-*ants-9999 (26 Jul 2015)
-
- 26 Jul 2015; <chymera@gentoo.org> +ants-9999.ebuild, +metadata.xml:
- new ebuild
diff --git a/sci-biology/apollo/ChangeLog b/sci-biology/apollo/ChangeLog
deleted file mode 100644
index 3e8b3d4a7..000000000
--- a/sci-biology/apollo/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/apollo
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> apollo-9999.ebuild, metadata.xml:
- sci-biology/apollo: fix SLOT operators
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> apollo-9999.ebuild:
- sci-biology/apollo: a skeleton for a new package, needs help
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> apollo-9999.ebuild:
- initial ebuild
diff --git a/sci-biology/argo-bin/ChangeLog b/sci-biology/argo-bin/ChangeLog
deleted file mode 100644
index 062eb7851..000000000
--- a/sci-biology/argo-bin/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/argo-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- argo-bin-1.0.31.ebuild, argo-bin-2.0.3.ebuild:
- sci-biology/argo-bin: remove IUSE
-
-*argo-bin-2.0.3 (26 May 2015)
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +argo-bin-2.0.3.ebuild, argo-bin-1.0.31.ebuild:
- sci-biology/argo-bin: ebuild cleanup; version bump
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- argo-bin-1.0.31.ebuild:
- sci-biology/argo-bin: redefine S variable so we can chdir to a WORKDIR (not
- sure why the jar archive must be unpacked there at all ...)
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> argo-bin-1.0.31.ebuild:
- Cleaned ebuild
diff --git a/sci-biology/argo/ChangeLog b/sci-biology/argo/ChangeLog
deleted file mode 100644
index 8f93ca397..000000000
--- a/sci-biology/argo/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/argo
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> argo-1.0.24.ebuild:
- sci-biology/argo: ebuild cleanup
-
- 13 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> argo-1.0.24.ebuild:
- fix java depencies syntax
diff --git a/sci-biology/artemis-bin/ChangeLog b/sci-biology/artemis-bin/ChangeLog
deleted file mode 100644
index 2e85ee642..000000000
--- a/sci-biology/artemis-bin/ChangeLog
+++ /dev/null
@@ -1,33 +0,0 @@
-# ChangeLog for sci-biology/artemis-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- artemis-bin-16.0.11.ebuild:
- sci-biology/artemis-bin: EAPI bump
-
-*artemis-bin-16.0.11 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +artemis-bin-16.0.11.ebuild, -artemis-bin-16.0.6.ebuild:
- sci-biology/artemis-bin: version bump
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- artemis-bin-16.0.6.ebuild:
- sci-biology/artemis-bin: documented dependences
-
-*artemis-bin-16.0.6 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +artemis-bin-16.0.6.ebuild, -artemis-bin-13.2.12.ebuild:
- sci-biology/artemis-bin: version bump, added a link to INSTALL docs
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> artemis-bin-13.2.12.ebuild,
- metadata.xml:
- Clean whitespace errors
-
-*artemis-bin-13.2.12 (08 Jan 2012)
-
- 08 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +artemis-bin-13.2.12.ebuild, +metadata.xml:
- initial, not yet working ebuild
diff --git a/sci-biology/artemis/ChangeLog b/sci-biology/artemis/ChangeLog
deleted file mode 100644
index b22824383..000000000
--- a/sci-biology/artemis/ChangeLog
+++ /dev/null
@@ -1,34 +0,0 @@
-# ChangeLog for sci-biology/artemis
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 09 Jun 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> artemis-9999.ebuild:
- sci-biology/artemis: ebuild cleanup; officially there is not install and one
- needs to keep the structure of the source tree and execute directly from
- there; therefore the ebuild does not work yet
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> artemis-9999.ebuild:
- sci-biology/artemis: fix SLOT operators
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> artemis-9999.ebuild:
- sci-biology/artemis: documented dependences
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> artemis-9999.ebuild:
- sci-biology/artemis: fixed JVM dependency, added a link to INSTALL docs
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> artemis-9999.ebuild,
- metadata.xml:
- Switch from git-2 to git-r3
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> artemis-9999.ebuild:
- sci-biology/artemis: adjust ebuild based on upstream providing a Makefile
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- artemis-9999.ebuild:
- adjust ebuild based on upstream providing a Makefile
-
-*artemis-9999 (08 Jan 2012)
-
- 08 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +artemis-9999.ebuild, +metadata.xml:
- initial, not yet working ebuild
diff --git a/sci-biology/atsas/ChangeLog b/sci-biology/atsas/ChangeLog
deleted file mode 100644
index 2f6d4e7d7..000000000
--- a/sci-biology/atsas/ChangeLog
+++ /dev/null
@@ -1,25 +0,0 @@
-# ChangeLog for sci-biology/atsas
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 22 Dec 2014; Justin Lecher <jlec@gentoo.org> atsas-2.6.0.ebuild:
- Add missing libs to installation
-
- 22 Dec 2014; Justin Lecher <jlec@gentoo.org> atsas-2.6.0.ebuild:
- Add libdir to rpath
-
- 21 Dec 2014; Justin Lecher <jlec@gentoo.org> atsas-2.6.0.ebuild:
- Drop quotes
-
- 21 Dec 2014; Justin Lecher <jlec@gentoo.org> atsas-2.6.0.ebuild:
- Add missing libpath
-
- 17 Dec 2014; Justin Lecher <jlec@gentoo.org> atsas-2.6.0.ebuild:
- Add missing deps
-
-*atsas-2.6.0 (17 Dec 2014)
-
- 17 Dec 2014; Justin Lecher <jlec@gentoo.org> +atsas-2.6.0.ebuild,
- +metadata.xml:
- New addition written by me
-
diff --git a/sci-biology/augustus/ChangeLog b/sci-biology/augustus/ChangeLog
deleted file mode 100644
index a3b813ce1..000000000
--- a/sci-biology/augustus/ChangeLog
+++ /dev/null
@@ -1,90 +0,0 @@
-# ChangeLog for sci-biology/augustus
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*augustus-3.1 (25 May 2015)
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +augustus-3.1.ebuild, -augustus-3.0.3.ebuild:
- sci-biology/augustus: version bump
-
- 16 Apr 2015; Justin Lecher <jlec@gentoo.org> augustus-3.0.3.ebuild:
- sci-biology/augustus: Switch RDEPEND - DEPEND
-
- 08 Apr 2015; Justin Lecher <jlec@gentoo.org> augustus-3.0.3.ebuild:
- sci-biology/augustus: Drop suspect DEPEND
-
- 11 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Drop Andrey as maintainer so that bugs get assigned to sci-biology directly
-
- 31 Jan 2013; Justin Lecher <jlec@gentoo.org> -augustus-2.3.1.ebuild,
- -augustus-2.4.ebuild, -augustus-2.5.ebuild, metadata.xml:
- Drop old, fixes multiple QA issues, #454822
-
- 31 Jan 2013; Agostino Sarubbo <ago@gentoo.org> augustus-2.5.5.ebuild:
- Stable for x86, wrt bug #454842
-
- 31 Jan 2013; Agostino Sarubbo <ago@gentoo.org> augustus-2.5.5.ebuild:
- Stable for amd64, wrt bug #454842
-
-*augustus-2.5.5 (23 Jun 2011)
-
- 23 Jun 2011; Justin Lecher <jlec@gentoo.org> augustus-2.3.1.ebuild,
- augustus-2.4.ebuild, augustus-2.5.ebuild, +augustus-2.5.5.ebuild,
- +files/augustus-2.5.5-sane-build.patch:
- Version Bump, respect LDFLAGS, #337655
-
- 09 Mar 2011; Markos Chandras <hwoarang@gentoo.org> augustus-2.4.ebuild:
- Stable on amd64 wrt bug #353573
-
- 09 Mar 2011; Thomas Kahle <tomka@gentoo.org> augustus-2.4.ebuild:
- x86 stable per bug 353573
-
- 04 Feb 2011; Andrey Kislyuk <weaver@gentoo.org> augustus-2.4.ebuild,
- augustus-2.5.ebuild:
- Respect LDFLAGS
-
-*augustus-2.5 (03 Feb 2011)
-
- 03 Feb 2011; Andrey Kislyuk <weaver@gentoo.org> augustus-2.4.ebuild,
- +augustus-2.5.ebuild:
- Version bump, update SRC_URI
-
-*augustus-2.4 (26 Sep 2010)
-
- 26 Sep 2010; Andrey Kislyuk <weaver@gentoo.org> -augustus-2.1.ebuild,
- -files/augustus-2.1-glibc-2.10.patch, +augustus-2.4.ebuild:
- Version bump, drop old
-
- 09 Feb 2010; Pacho Ramos <pacho@gentoo.org> augustus-2.3.1.ebuild:
- amd64 stable, bug 298767
-
- 29 Dec 2009; Christian Faulhammer <fauli@gentoo.org>
- augustus-2.3.1.ebuild:
- stable x86, bug 298767
-
-*augustus-2.3.1 (16 Nov 2009)
-
- 16 Nov 2009; Andrey Kislyuk <weaver@gentoo.org> +augustus-2.3.1.ebuild:
- Version bump
-
- 31 Oct 2009; Markus Meier <maekke@gentoo.org> augustus-2.1.ebuild:
- amd64/x86 stable, bug #290924
-
- 09 Aug 2009; Samuli Suominen <ssuominen@gentoo.org> augustus-2.1.ebuild,
- +files/augustus-2.1-glibc-2.10.patch:
- Fix building with GLIBC 2.10+ wrt #276719.
-
-*augustus-2.1 (19 Mar 2009)
-
- 19 Mar 2009; Andrey Kislyuk <weaver@gentoo.org>
- -files/augustus-2.0.3-cflags.patch, -files/augustus-2.0.3-gcc4.3.patch,
- -augustus-2.0.3.ebuild, +augustus-2.1.ebuild:
- Version bump
-
-*augustus-2.0.3 (04 Jan 2009)
-
- 04 Jan 2009; weaver <weaver@gentoo.org>
- +files/augustus-2.0.3-cflags.patch, +files/augustus-2.0.3-gcc4.3.patch,
- +metadata.xml, +augustus-2.0.3.ebuild:
- Initial commit, ebuild written by me
diff --git a/sci-biology/autoeditor/ChangeLog b/sci-biology/autoeditor/ChangeLog
deleted file mode 100644
index 6755dc5ef..000000000
--- a/sci-biology/autoeditor/ChangeLog
+++ /dev/null
@@ -1,7 +0,0 @@
-# ChangeLog for sci-biology/autoeditor
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 24 Jun 2011; Justin Lecher <jlec@gentoo.org> autoeditor-1.20.ebuild:
- Shorten Summary
-
diff --git a/sci-biology/bambino/ChangeLog b/sci-biology/bambino/ChangeLog
deleted file mode 100644
index 42aea399b..000000000
--- a/sci-biology/bambino/ChangeLog
+++ /dev/null
@@ -1,23 +0,0 @@
-# ChangeLog for sci-biology/bambino
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> bambino-1.02.ebuild,
- bambino-1.06.ebuild:
- fix java dependencies syntax
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> bambino-1.02.ebuild,
- bambino-1.06.ebuild:
- fixed DESCRIPTION
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> bambino-1.02.ebuild,
- bambino-1.06.ebuild:
- sci-biology/bambino: added more relevant homepage with some INSTALL info
-
-*bambino-1.02 (23 Mar 2014)
-*bambino-1.06 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bambino-1.02.ebuild, +bambino-1.06.ebuild, +metadata.xml:
- sci-biology/bambino: a new package, maybe should have -bin in its name?; needs
- decent inspection from java team for sure
diff --git a/sci-biology/bambus/ChangeLog b/sci-biology/bambus/ChangeLog
deleted file mode 100644
index 45b16d796..000000000
--- a/sci-biology/bambus/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/bambus
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> bambus-2.33.ebuild:
- sci-biology/bambus: actually do not install the outdated *.pm files but rely
- on them from sci-biology/amos
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> bambus-2.33.ebuild:
- sci-biology/bambus: fixed installation of perl-related files
-
- 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> bambus-2.33.ebuild:
- sci-biology/bambus: fix installation process and use current perl-module files
- from amos package instead
diff --git a/sci-biology/bamtools/ChangeLog b/sci-biology/bamtools/ChangeLog
deleted file mode 100644
index 90e25bed9..000000000
--- a/sci-biology/bamtools/ChangeLog
+++ /dev/null
@@ -1,30 +0,0 @@
-# ChangeLog for sci-biology/bamtools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/bamtools: Add github to remote-id in metadata.xml
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> bamtools-9999.ebuild,
- metadata.xml:
- Switch from git-2 to git-r3
-
- 09 Nov 2012; Justin Lecher <jlec@gentoo.org> -bamtools-1.0.2.ebuild,
- bamtools-9999.ebuild:
- Drop tree version, merge changes into live version
-
-*bamtools-1.0.2 (10 Sep 2011)
-
- 10 Sep 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bamtools-1.0.2.ebuild, bamtools-9999.ebuild, -bamtools-20101215.ebuild,
- metadata.xml:
- moved to new release download link and version bump, documented that included
- JsonCPP is a modified version bamtools-20101215.ebuild bamtools-1.0.2.ebuild
- bamtools-9999.ebuild
-
- 08 Sep 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- bamtools-9999.ebuild, bamtools-20101215.ebuild:
- Point to current HOMEPAGE bamtools-20101215.ebuild bamtools-9999.ebuild
-
- 24 Jun 2011; Justin Lecher <jlec@gentoo.org> bamtools-9999.ebuild:
- Moved from 'git' to 'git-2'
diff --git a/sci-biology/barnacle/ChangeLog b/sci-biology/barnacle/ChangeLog
deleted file mode 100644
index e8bbb5016..000000000
--- a/sci-biology/barnacle/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/barnacle
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*barnacle-1.0.3 (05 May 2015)
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +barnacle-1.0.3.ebuild, +metadata.xml:
- sci-biology/barnacle: a skeleton of a messy package
diff --git a/sci-biology/barrnap/ChangeLog b/sci-biology/barrnap/ChangeLog
deleted file mode 100644
index f4ef00240..000000000
--- a/sci-biology/barrnap/ChangeLog
+++ /dev/null
@@ -1,33 +0,0 @@
-# ChangeLog for sci-biology/barrnap
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*barrnap-0.4 (27 Apr 2015)
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +barrnap-0.4.ebuild,
- barrnap-0.3.ebuild:
- sci-biology/barrnap: version bump; adjust the ebuild to new install layout
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> barrnap-0.3.ebuild:
- generalized dependency on perl
-
- 26 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> barrnap-0.3.ebuild:
- sci-biology/barrnap: working ebuild although installing a pre-compiled binary
- and until somebody hacks teh main perl code it need to be installed into
- /usr/share/ and modifies
- /home/mmokrejs/bin:/usr/local/bin:/usr/bin:/bin:/opt/bin:/usr/x86_64-pc-linux-
- gnu/gcc-bin/4.8.2:/opt/vmware/bin:/opt/ucsc-genome-browser/bin:/opt/Apollo:/op
- t/Tablet:$PATH:/usr/share/cgview_comparison_tool/scripts:/opt/meme/bin:/opt/45
- 4/bin:/usr/local/pedant/PEDANT2/soft/PEDANT2/PERL:/home/mokrejs/proj/pedant-
- tools/perl:/home/mokrejs/proj/mysql-tools::/usr/local/staden-linux-1-6-0
- /linux-bin/:/home/mmokrejs/software/i386_linux24/usr/local/bin:/home/mmokrejs/
- bin/SPDBV:/home/mmokrejs/bin/PDBViewer_230303:/home/mmokrejs/bin/AstexViewer2/
- bin:/usr/local/modeller9v4/bin:/usr/local/chimera/bin:/opt/454/bin:/usr/local/
- pedant/PEDANT2/soft/PEDANT2/PERL:/home/mokrejs/proj/pedant-
- tools/perl:/home/mokrejs/proj/mysql-tools: accordingly
-
-*barrnap-0.3 (15 Apr 2014)
-
- 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +barrnap-0.3.ebuild,
- +metadata.xml:
- sci-biology/barrnap: new package, package contains bundled binaries, untested
diff --git a/sci-biology/bcftools/ChangeLog b/sci-biology/bcftools/ChangeLog
deleted file mode 100644
index aceee1547..000000000
--- a/sci-biology/bcftools/ChangeLog
+++ /dev/null
@@ -1,22 +0,0 @@
-# ChangeLog for sci-biology/bcftools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/bcftools: Add github to remote-id in metadata.xml
-
-*bcftools-1.2 (02 Mar 2015)
-
- 02 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bcftools-1.2.ebuild, -bcftools-1.1.ebuild:
- version bump, respect CC and CFLAGS
-
- 15 Jan 2015; Christoph Junghans <ottxor@gentoo.org> bcftools-1.1.ebuild:
- fixed license
-
-*bcftools-1.1 (14 Jan 2015)
-
- 14 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bcftools-1.1.ebuild, +metadata.xml:
- sci-biology/bcftools: new package: compiles against bundled sci-
- libs/htslib-1.1 but does not install it
diff --git a/sci-biology/beagle/ChangeLog b/sci-biology/beagle/ChangeLog
deleted file mode 100644
index 16542b71f..000000000
--- a/sci-biology/beagle/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/beagle
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 04 Sep 2015; Marius Brehler <marbre@linux.sungazer.de> beagle-4.0.ebuild:
- sci-biology/beagle: Fix dependencies and slotting
-
- 04 Sep 2015; Marius Brehler <marbre@linux.sungazer.de> beagle-4.0.ebuild:
- sci-biology/beagle: Adjust too long DESCRIPTION
-
-*beagle-4.0 (10 May 2015)
-
- 10 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +beagle-4.0.ebuild,
- +metadata.xml:
- sci-biology/beagle: a skeleton for a new java package with just *.java files
- provided
diff --git a/sci-biology/beaglecall/ChangeLog b/sci-biology/beaglecall/ChangeLog
deleted file mode 100644
index fb1c4da54..000000000
--- a/sci-biology/beaglecall/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/beaglecall
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*beaglecall-20101115 (10 May 2015)
-
- 10 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +beaglecall-20101115.ebuild, +metadata.xml:
- sci-biology/beaglecall: a skeleton for a new java package with just *.java
- files provided
diff --git a/sci-biology/bedtools/ChangeLog b/sci-biology/bedtools/ChangeLog
deleted file mode 100644
index aba828a9b..000000000
--- a/sci-biology/bedtools/ChangeLog
+++ /dev/null
@@ -1,27 +0,0 @@
-# ChangeLog for sci-biology/bedtools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> bedtools-2.22.1.ebuild:
- sci-biology/bedtools: Bump to EAPI=5
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/bedtools: Add github to remote-id in metadata.xml
-
-*bedtools-2.22.1 (14 Jan 2015)
-
- 14 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bedtools-2.22.1.ebuild, -bedtools-2.20.1.ebuild:
- drop old version which already landed in main tree; add ebuild for new version
-
-*bedtools-2.20.1 (30 May 2014)
-
- 30 May 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bedtools-2.20.1.ebuild, -bedtools-2.19.1.ebuild:
- sci-biology/bedtools-2.20.1: version bump
-
-*bedtools-2.19.1 (15 Apr 2014)
-
- 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +bedtools-2.19.1.ebuild, +metadata.xml:
- sci-biology/bedtools: version bump per bug #505538
diff --git a/sci-biology/biobambam/ChangeLog b/sci-biology/biobambam/ChangeLog
deleted file mode 100644
index 059db7d79..000000000
--- a/sci-biology/biobambam/ChangeLog
+++ /dev/null
@@ -1,6 +0,0 @@
-# ChangeLog for sci-biology/biobambam
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/biobambam: Add github to remote-id in metadata.xml
diff --git a/sci-biology/biopieces/ChangeLog b/sci-biology/biopieces/ChangeLog
deleted file mode 100644
index b6d8dfa1c..000000000
--- a/sci-biology/biopieces/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/biopieces
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Mar 2015; Justin Lecher <jlec@gentoo.org> biopieces-9999.ebuild:
- Fix missing test in IUSE and missing dep in python
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> -Manifest, biopieces-9999.ebuild:
- sci-biology/biopieces: fix SLOT operators; correct ruby and python deps
-
- 13 Nov 2014; Justin Lecher <jlec@gentoo.org> biopieces-0.51.ebuild,
- biopieces-9999.ebuild:
- Use perl virtuals instead of core
-
-*biopieces-0.51 (28 Mar 2014)
-*biopieces-9999 (28 Mar 2014)
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +biopieces-0.51.ebuild, +biopieces-9999.ebuild, +metadata.xml:
- sci-biology/biopieces: skeleton for a new package; has it's own install.sh
- script
diff --git a/sci-biology/blasr/ChangeLog b/sci-biology/blasr/ChangeLog
deleted file mode 100644
index 799c8b231..000000000
--- a/sci-biology/blasr/ChangeLog
+++ /dev/null
@@ -1,19 +0,0 @@
-# ChangeLog for sci-biology/blasr
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> blasr-9999.ebuild:
- Switch from git-2 to git-r3
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> blasr-9999.ebuild:
- correct license
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> blasr-9999.ebuild, metadata.xml:
- Migrate to git2 eclass and EAPI=5
-
-*blasr-9999 (22 Mar 2012)
-
- 22 Mar 2012; Andrey Kislyuk <weaver@gentoo.org> +blasr-9999.ebuild,
- +metadata.xml:
- New package, ebuild written by me
-
diff --git a/sci-biology/blue/ChangeLog b/sci-biology/blue/ChangeLog
deleted file mode 100644
index 742b710bc..000000000
--- a/sci-biology/blue/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/blue
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*blue-1.1.3 (26 May 2015)
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +blue-1.1.3.ebuild,
- blue-1.1.2.ebuild:
- sci-biology/blue: version bump, updated HOMEPAGE and SRC_URI
-
- 17 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> blue-1.1.2.ebuild:
- improved comments based on email from upstream
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> blue-1.1.2.ebuild:
- Fix license
-
-*blue-1.1.2 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +blue-1.1.2.ebuild,
- +metadata.xml:
- Initial ebuild, does not install the *.exe.so files. Do we need them?
diff --git a/sci-biology/brat/ChangeLog b/sci-biology/brat/ChangeLog
deleted file mode 100644
index d317a3b18..000000000
--- a/sci-biology/brat/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/brat
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*brat-1.2.4 (06 Dec 2013)
-
- 06 Dec 2013; Justin Lecher <jlec@gentoo.org> -brat-1.1.13.ebuild,
- +brat-1.2.4.ebuild, metadata.xml:
- Version Bump
-
- 09 May 2010; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
-
diff --git a/sci-biology/breakdancer/ChangeLog b/sci-biology/breakdancer/ChangeLog
deleted file mode 100644
index 7dd30ef1a..000000000
--- a/sci-biology/breakdancer/ChangeLog
+++ /dev/null
@@ -1,23 +0,0 @@
-# ChangeLog for sci-biology/breakdancer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- breakdancer-9999.ebuild:
- sci-biology/breakdancer: added inherit cmake
-
- 18 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- breakdancer-9999.ebuild:
- sci-biology/breakdancer: update homepage
-
-*breakdancer-9999 (18 May 2015)
-
- 18 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +breakdancer-9999.ebuild, -Manifest, -breakdancer-1.1.2.ebuild:
- sci-biology/breakdancer: upstream moved to github
-
-*breakdancer-1.1.2 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +breakdancer-1.1.2.ebuild, +metadata.xml:
- sci-biology/breakdancer: a skeleton for a new package, needs perl help
diff --git a/sci-biology/bru2nii/ChangeLog b/sci-biology/bru2nii/ChangeLog
deleted file mode 100644
index b3db4ad4b..000000000
--- a/sci-biology/bru2nii/ChangeLog
+++ /dev/null
@@ -1,30 +0,0 @@
-# ChangeLog for sci-biology/bru2nii
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de> bru2nii-9999.ebuild:
- sci-biology/bru2nii: Fix minorsyn
-
- 05 Nov 2015; Horea Christian <h.chr@mail.ru> bru2nii-9999.ebuild:
- sci-biology/bru2nii: Updated USE conditional logic again
-
- 04 Nov 2015; Horea Christian <h.chr@mail.ru> bru2nii-9999.ebuild:
- sci-biology/bru2nii: updated conditional die implemntation
-
- 03 Nov 2015; Horea Christian <h.chr@mail.ru> bru2nii-9999.ebuild:
- sci-biology/bru2nii:
-
- 03 Nov 2015; Horea Christian <h.chr@mail.ru> bru2nii-9999.ebuild:
- sci-biology/bru2nii: corrected die calls
-
- 03 Nov 2015; Horea Christian <h.chr@mail.ru> bru2nii-9999.ebuild:
- sci-biology/bru2nii: added use-flag conditioning
-
- 03 Nov 2015; Horea Christian <h.chr@mail.ru> bru2nii-9999.ebuild:
- sci-biology/bru2nii: removed testing snippet
-
-*bru2nii-9999 (03 Nov 2015)
-
- 03 Nov 2015; Horea Christian <h.chr@mail.ru> +bru2nii-9999.ebuild,
- +metadata.xml:
- sci-biology/bru2nii: new ebuild
diff --git a/sci-biology/bx-python/ChangeLog b/sci-biology/bx-python/ChangeLog
deleted file mode 100644
index 225759702..000000000
--- a/sci-biology/bx-python/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/bx-python
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 07 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/bx-python: Add bitbucket to remote-id in metadata.xml
-
- 13 Apr 2015; Justin Lecher <jlec@gentoo.org> bx-python-0.7.2.ebuild,
- bx-python-9999.ebuild:
- sci-biology/bx-python: Streamline ebuild
-
-*bx-python-0.7.2 (12 Apr 2015)
-*bx-python-9999 (12 Apr 2015)
-
- 12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +bx-python-0.7.2.ebuild,
- +bx-python-9999.ebuild, +metadata.xml:
- sci-biology/bx-python: add bx-python
diff --git a/sci-biology/caftools/ChangeLog b/sci-biology/caftools/ChangeLog
deleted file mode 100644
index 53ada3142..000000000
--- a/sci-biology/caftools/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/caftools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- caftools-2.0.2.ebuild:
- sci-biology/caftools: added a link to the original publication; Simon Dear
- <sd@sanger.ac.uk>: host extmail.sanger.ac.uk[193.62.203.50] said: 550 unknown
-
- 04 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- caftools-2.0.2.ebuild:
- sci-biology/caftools: clarified package description
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -caftools-2.0.ebuild,
- caftools-2.0.2.ebuild, metadata.xml:
- Drop old; Bump to EAPI=5 and fix license
diff --git a/sci-biology/cast-bin/ChangeLog b/sci-biology/cast-bin/ChangeLog
deleted file mode 100644
index aff5d4a34..000000000
--- a/sci-biology/cast-bin/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/cast-bin
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*cast-bin-20080813 (06 Jan 2016)
-
- 06 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +cast-bin-20080813.ebuild, +metadata.xml:
- sci-biology/cast-bin: new package
diff --git a/sci-biology/cd-hit-auxtools/ChangeLog b/sci-biology/cd-hit-auxtools/ChangeLog
deleted file mode 100644
index fcad5d226..000000000
--- a/sci-biology/cd-hit-auxtools/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/cd-hit-auxtools
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 01 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- cd-hit-auxtools-0.5.ebuild:
- sci-biology/cd-hit-auxtools: added HTML manual page
-
-*cd-hit-auxtools-0.5 (01 Jun 2014)
-
- 01 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +cd-hit-auxtools-0.5.ebuild, +files/0.5-gentoo.patch, +metadata.xml:
- sci-biology/cd-hit-auxtools: new package, needs gcc<=4.6.4 or some CXXFLAG to
- loosen g++ strictness
diff --git a/sci-biology/cd-hit/ChangeLog b/sci-biology/cd-hit/ChangeLog
deleted file mode 100644
index 051ec77c9..000000000
--- a/sci-biology/cd-hit/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/cd-hit
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 01 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> cd-hit-4.6.1.ebuild:
- sci-biology/cd-hit-4.6.1: forgot to re-enable the reworked patch
-
-*cd-hit-4.6.1 (01 Jun 2014)
-
- 01 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +cd-hit-4.6.1.ebuild, +files/4.6.1-gentoo.patch, +metadata.xml:
- sci-biology/cd-hit-4.6.1: version bump
diff --git a/sci-biology/cegma/ChangeLog b/sci-biology/cegma/ChangeLog
deleted file mode 100644
index 3939e92ff..000000000
--- a/sci-biology/cegma/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/cegma
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> cegma-2.5.ebuild:
- sci-biology/cegma: re-added KEYWORDS because sci-biology/ncbi-tools++ is now
- available; fixed installation of perl-related files; dropped hmmer from DEPEND
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> cegma-2.5.ebuild:
- Fix license;drop keywords due to missing keyowrds of deps
-
- 10 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +cegma-2.5.ebuild,
- +metadata.xml:
- new package; install *.pm into PERL5LIB/cegma and pass that via env.d
diff --git a/sci-biology/cgview-bin/ChangeLog b/sci-biology/cgview-bin/ChangeLog
deleted file mode 100644
index 0cbb6fd1c..000000000
--- a/sci-biology/cgview-bin/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/cgview-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- cgview-bin-20131130.ebuild:
- sci-biology/cgview-bin: fixed installation of perl-related files
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> cgview-bin-20131130.ebuild:
- sci-biology/cgview-bin: fix SLOT operators; drop KEYWORDS as fetch failed
-
-*cgview-bin-20131130 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +cgview-bin-20131130.ebuild, +metadata.xml:
- sci-biology/cgview-bin: new package, needs java team testing, maybe dev-
- java/batik is misisng svg USE flag?
diff --git a/sci-biology/clover/ChangeLog b/sci-biology/clover/ChangeLog
deleted file mode 100644
index 3d5b69233..000000000
--- a/sci-biology/clover/ChangeLog
+++ /dev/null
@@ -1,26 +0,0 @@
-# ChangeLog for sci-biology/clover
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -clover-2010.02.19.ebuild,
- +clover-2011.10.24.ebuild, metadata.xml:
- Version Bump; fixed license; respect LDFLAGS
-
-*clover-2010.02.19 (23 Aug 2010)
-
- 23 Aug 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
- -clover-2006.07.17.ebuild, +clover-2010.02.19.ebuild:
- Trivial version bump. Thanks to Martin Mokrejš.
-
- 23 Jun 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
- clover-2006.07.17.ebuild:
- QA fixes
-
- 27 Apr 2007; Andrey Kislyuk <weaver@horizon.ath.cx>
- +clover-2006.07.17.ebuild:
- Mass import from sunrise
-
- 15 Mar 2007; Andrey Kislyuk <weaver@horizon.ath.cx> +clover-2006.07.17.ebuild,
- +metadata.xml:
- new package (bug 142269)
-
diff --git a/sci-biology/cluster/ChangeLog b/sci-biology/cluster/ChangeLog
deleted file mode 100644
index 8cf657bdf..000000000
--- a/sci-biology/cluster/ChangeLog
+++ /dev/null
@@ -1,30 +0,0 @@
-# ChangeLog for sci-biology/cluster
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> cluster-1.50.ebuild,
- cluster-1.50-r1.ebuild, metadata.xml:
- Correct motif dep naming
-
- 09 Jun 2012; Justin Lecher <jlec@gentoo.org> cluster-1.50.ebuild,
- cluster-1.50-r1.ebuild:
- Correct masking, #419999
-
-*cluster-1.50-r1 (07 Jun 2012)
-
- 07 Jun 2012; Justin Lecher <jlec@gentoo.org> +cluster-1.50-r1.ebuild:
- Rename cluster to cluster3, #419999
-
-*cluster-1.50 (24 May 2012)
-
- 24 May 2012; Justin Lecher <jlec@gentoo.org> -cluster-1.38.ebuild,
- +cluster-1.50.ebuild, metadata.xml:
- Version Bump, Move to EAPI=4
-
- 23 Jun 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
- cluster-1.38.ebuild:
- QA fixes
-
- 09 Aug 2007; Jeff Gardner <je_fro@gentoo.org> ChangeLog:
- Initial import of cluster-1.36 thanks to Favero Francesco
-
diff --git a/sci-biology/clview/ChangeLog b/sci-biology/clview/ChangeLog
deleted file mode 100644
index 6103322ce..000000000
--- a/sci-biology/clview/ChangeLog
+++ /dev/null
@@ -1,6 +0,0 @@
-# ChangeLog for sci-biology/clview
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 04 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> clview-0.1.ebuild:
- sci-biology/clview: add dependency on =x11-libs/fox-1.6*
diff --git a/sci-biology/cnrun/ChangeLog b/sci-biology/cnrun/ChangeLog
deleted file mode 100644
index 7264b83fd..000000000
--- a/sci-biology/cnrun/ChangeLog
+++ /dev/null
@@ -1,6 +0,0 @@
-# ChangeLog for sci-biology/cnrun
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 19 Feb 2015; Andrei Zavada <johnhommer@gmail.com> cnrun-2.0.2.ebuild:
- sci-biology/cnrun: initial ebuild, repoman clean
diff --git a/sci-biology/codonw/ChangeLog b/sci-biology/codonw/ChangeLog
deleted file mode 100644
index 4bcea2c44..000000000
--- a/sci-biology/codonw/ChangeLog
+++ /dev/null
@@ -1,31 +0,0 @@
-# ChangeLog for sci-biology/codonw
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- codonw-1.4.4-r2.ebuild:
- sci-biology/codonw: add original Thesis of John Peden describing codonw
- package in more detail
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/codonw: Updating remote-id in metadata.xml
-
-*codonw-1.4.4-r2 (30 May 2015)
-
- 30 May 2015; Justin Lecher <jlec@gentoo.org> +codonw-1.4.4-r2.ebuild,
- -codonw-1.4.4-r1.ebuild, metadata.xml:
- sci-biology/codonw: Workaround file collision by appending PN to every
- command, bug #344713, bug #550388
-
- 10 Jan 2015; Marius Brehler <marbre@linux.sungazer.de>
- condow-1.4.4-r1.ebuild:
- Move to EAPI=5.
-
-*codonw-1.4.4-r1 (08 Nov 2010)
-
- 08 Nov 2010; Kacper Kowalik <xarthisius@gentoo.org> -codonw-1.4.4.ebuild,
- +codonw-1.4.4-r1.ebuild:
- Respect CC,CFLAGS,LDFLAGS. Add missing die. Drop empty deps.
-
- 28 Feb 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package sci-biology/codonw, ebuild written by me
diff --git a/sci-biology/conform-gt/ChangeLog b/sci-biology/conform-gt/ChangeLog
deleted file mode 100644
index d90924a04..000000000
--- a/sci-biology/conform-gt/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/conform-gt
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*conform-gt-1174 (10 May 2015)
-
- 10 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +conform-gt-1174.ebuild, +metadata.xml:
- sci-biology/conform-gt: a skeleton for a new java package with just *.java
- files provided
diff --git a/sci-biology/conifer/ChangeLog b/sci-biology/conifer/ChangeLog
deleted file mode 100644
index 274438939..000000000
--- a/sci-biology/conifer/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/conifer
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*conifer-0.2.2 (16 Mar 2014)
-
- 16 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +conifer-0.2.2.ebuild, +metadata.xml:
- sci-biology/conifer: new package
diff --git a/sci-biology/consed/ChangeLog b/sci-biology/consed/ChangeLog
deleted file mode 100644
index 9943dc885..000000000
--- a/sci-biology/consed/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/consed
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*consed-29 (23 Jul 2015)
-
- 23 Jul 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +consed-29.ebuild,
- +metadata.xml:
- sci-biology/consed-29.0: version bump
diff --git a/sci-biology/consed2gap/ChangeLog b/sci-biology/consed2gap/ChangeLog
deleted file mode 100644
index 4b92bec71..000000000
--- a/sci-biology/consed2gap/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/consed2gap
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 24 Sep 2014; Justin Lecher <jlec@gentoo.org> consed2gap-20050520.ebuild,
- metadata.xml:
- Bump to EAPI=5
-
-*consed2gap-20050520 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +consed2gap-20050520.ebuild, +metadata.xml:
- sci-biology/consed2gap: new package, works
diff --git a/sci-biology/coral/ChangeLog b/sci-biology/coral/ChangeLog
deleted file mode 100644
index cd6b4e0fb..000000000
--- a/sci-biology/coral/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/coral
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*coral-1.4 (17 Mar 2015)
-
- 17 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +coral-1.4.ebuild,
- +metadata.xml:
- new package
diff --git a/sci-biology/cortex_var/ChangeLog b/sci-biology/cortex_var/ChangeLog
deleted file mode 100644
index 88e9c0af0..000000000
--- a/sci-biology/cortex_var/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/cortex_var
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- cortex_var-1.0.5.21.ebuild:
- sci-biology/cortex_var: cleanup ebuild syntax
-
-*cortex_var-1.0.5.21 (18 Apr 2015)
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +cortex_var-1.0.5.21.ebuild, +metadata.xml:
- sci-biology/cortex_var: new package with bundled htslib and gsl libraries
diff --git a/sci-biology/cutadapt/ChangeLog b/sci-biology/cutadapt/ChangeLog
deleted file mode 100644
index 55c3fb1b3..000000000
--- a/sci-biology/cutadapt/ChangeLog
+++ /dev/null
@@ -1,23 +0,0 @@
-# ChangeLog for sci-biology/cutadapt
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*cutadapt-1.5 (11 Sep 2014)
-
- 11 Sep 2014; Jauhien Piatlicki <jauhien@gentoo.org> +cutadapt-1.5.ebuild:
- version bump
-
- 11 Sep 2014; Jauhien Piatlicki <jauhien@gentoo.org> cutadapt-1.2.1.ebuild,
- cutadapt-1.4.1.ebuild:
- fix SRC_URI
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -cutadapt-1.0.ebuild,
- +cutadapt-1.2.1.ebuild, metadata.xml:
- Version Bump; Bump to EAPI5 and distutils-r1.eclass
-
-*cutadapt-1.0 (02 Mar 2012)
-
- 02 Mar 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +cutadapt-1.0.ebuild, +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/dawg/ChangeLog b/sci-biology/dawg/ChangeLog
deleted file mode 100644
index a6b5302fc..000000000
--- a/sci-biology/dawg/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/dawg
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> -dawg-1.1.1.ebuild,
- +dawg-1.1.2.ebuild, -files/dawg-1.1.1-gcc43.patch,
- +files/dawg-1.1.2-gcc43.patch:
- Bump EAPI; version Bump
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Fixed herd entry in metadata.xml
-
- 24 Jun 2008; weaver <weaver@gentoo.org> +files/dawg-1.1.1-gcc43.patch,
- +dawg-1.1.1.ebuild:
- New package
-
diff --git a/sci-biology/dcmstack/ChangeLog b/sci-biology/dcmstack/ChangeLog
deleted file mode 100644
index 333d2d37a..000000000
--- a/sci-biology/dcmstack/ChangeLog
+++ /dev/null
@@ -1,24 +0,0 @@
-# ChangeLog for sci-biology/dcmstack
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 31 Mar 2015; Horea Christian <h.chr@mail.ru> dcmstack-9999.ebuild:
- gentoo does not support python 2_6
-
- 31 Mar 2015; Horea Christian <h.chr@mail.ru> dcmstack-9999.ebuild:
- corrected python compatibilities
-
- 31 Mar 2015; Horea Christian <h.chr@mail.ru> dcmstack-9999.ebuild:
- added python 3.3 compatibility
-
- 31 Mar 2015; Horea Christian <h.chr@mail.ru> dcmstack-9999.ebuild:
- removed unneeded bits, sorted eclasses
-
- 31 Mar 2015; Horea Christian <h.chr@mail.ru> dcmstack-9999.ebuild:
- updated deps
-
-*dcmstack-9999 (31 Mar 2015)
-
- 31 Mar 2015; Horea Christian <h.chr@mail.ru> +dcmstack-9999.ebuild,
- +metadata.xml:
- new package, initial draft
diff --git a/sci-biology/discrover/ChangeLog b/sci-biology/discrover/ChangeLog
deleted file mode 100644
index b5a30f745..000000000
--- a/sci-biology/discrover/ChangeLog
+++ /dev/null
@@ -1,49 +0,0 @@
-# ChangeLog for sci-biology/discrover
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/discrover: Add github to remote-id in metadata.xml
-
-*discrover-1.6.0 (18 Mar 2015)
-
- 18 Mar 2015; Jonas Maaskola <jonas@maaskola.de> +discrover-1.6.0.ebuild,
- -discrover-1.5.2.ebuild, discrover-9999.ebuild, metadata.xml:
- sci-biology/discrover: version bump; drop USE flag
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> discrover-1.5.2.ebuild,
- discrover-9999.ebuild, metadata.xml:
- sci-biology/discrover: fix SLOT operators; correct ruby deps
-
-*discrover-1.5.2 (27 Jan 2015)
-
- 27 Jan 2015; Jonas Maaskola <jonas@maaskola.de> +discrover-1.5.2.ebuild,
- -discrover-1.4.1.ebuild, discrover-9999.ebuild, metadata.xml:
- sci-biology/discrover: bump package version, add USE flag for link-time
- optimization, install doc to /usr/share/doc/${PF}
-
-*discrover-1.4.1 (05 Jan 2015)
-
- 05 Jan 2015; Jonas Maaskola <jonas@maaskola.de> +discrover-1.4.1.ebuild,
- -discrover-1.4.0.ebuild:
- Bump patch version
-
-*discrover-1.4.0 (04 Jan 2015)
-
- 04 Jan 2015; Jonas Maaskola <jonas@maaskola.de> +discrover-1.4.0.ebuild,
- -discrover-1.3.1.ebuild, discrover-9999.ebuild, metadata.xml:
- Bump minor version to 1.4.0. Introduces a new USE flag: 'cairo'.
- x11-libs/cairo is used to generate sequence logos. The USE flag 'logo' has
- been renamed to 'tikzlogo'. The tikzlogo Ruby script served the purpose that
- is now fulfilled by the Cairo-based code. tikzlogo requires Ruby, ImageMagick,
- and a full TeX Live installation (including the large dev-texlive/texlive-
- latexextra). Compared to that, the new Cairo-based code has much reduced
- dependencies, and is hence the preferred way to generate sequence logos.
-
-*discrover-1.3.1 (15 Dec 2014)
-
- 15 Dec 2014; Jonas Maaskola <jonas@maaskola.de> +discrover-1.3.1.ebuild,
- -discrover-1.1.2.ebuild, discrover-9999.ebuild:
- sci-biology/discrover: version bump; add to RDEPEND Bump ebuild for new
- release. When the USE flag "logo" is used, we also need to depend on texlive-
- latexextra for the standalone package.
diff --git a/sci-biology/dna2pep/ChangeLog b/sci-biology/dna2pep/ChangeLog
deleted file mode 100644
index f1a8fddb3..000000000
--- a/sci-biology/dna2pep/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/dna2pep
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 04 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> dna2pep-1.1.ebuild:
- sci-biology/dna2pep: fix shebang lines
-
-*dna2pep-1.1 (04 Jan 2016)
-
- 04 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +dna2pep-1.1.ebuild,
- +metadata.xml:
- sci-biology/dna2pep: new package that will needed by sci-biology/Annocript
diff --git a/sci-biology/ePCR/ChangeLog b/sci-biology/ePCR/ChangeLog
deleted file mode 100644
index 9d6c35e70..000000000
--- a/sci-biology/ePCR/ChangeLog
+++ /dev/null
@@ -1,7 +0,0 @@
-# ChangeLog for sci-biology/ePCR
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> ePCR-2.3.12.ebuild:
- Fix license
-
diff --git a/sci-biology/edena/ChangeLog b/sci-biology/edena/ChangeLog
deleted file mode 100644
index 2aa261269..000000000
--- a/sci-biology/edena/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/edena
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*edena-3.131028 (15 Jan 2015)
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +edena-3.131028.ebuild, +metadata.xml:
- sci-biology/edena: new package
diff --git a/sci-biology/epga/ChangeLog b/sci-biology/epga/ChangeLog
deleted file mode 100644
index 787835328..000000000
--- a/sci-biology/epga/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/epga
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/epga: Add github to remote-id in metadata.xml
-
- 09 Feb 2015; Marius Brehler <marbre@linux.sungazer.de> epga-9999.ebuild:
- Switch from git-2 to git-r3; Cleanup
-
- 18 Jan 2015; Christoph Junghans <ottxor@gentoo.org> epga-9999.ebuild:
- license defined
-
-*epga-9999 (15 Jan 2015)
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +epga-9999.ebuild,
- +metadata.xml:
- new package; no LICENSE file
diff --git a/sci-biology/erpin/ChangeLog b/sci-biology/erpin/ChangeLog
deleted file mode 100644
index 4d3368ae2..000000000
--- a/sci-biology/erpin/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/erpin
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> erpin-5.5b.ebuild, metadata.xml:
- Bump to EAPI=5 and respect FLAGS / AR
-
- 23 Nov 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
-
diff --git a/sci-biology/est2assembly/ChangeLog b/sci-biology/est2assembly/ChangeLog
deleted file mode 100644
index 164cb7901..000000000
--- a/sci-biology/est2assembly/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/est2assembly
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- est2assembly-1.08.ebuild:
- fix S variable, use PV in URI
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> est2assembly-1.08.ebuild,
- est2assembly-9999.ebuild:
- Bump EAPI; drop KEYWORDS from live ebuild; fix deps
-
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
deleted file mode 100644
index a495a5353..000000000
--- a/sci-biology/estscan/ChangeLog
+++ /dev/null
@@ -1,30 +0,0 @@
-# ChangeLog for sci-biology/estscan
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 24 Sep 2014; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild:
- Bump to EAPI=5
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Add local USE to metadata.xml
-
- 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- estscan-3.0.3.ebuild:
- remove offending double-quotes
-
- 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- estscan-3.0.3.ebuild:
- ebuild cleanup, works, releasing for testing estscan-3.0.3.ebuild
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- estscan-3.0.3.ebuild:
- some ebuild cleanup estscan-3.0.3.ebuild
-
- 23 Jun 2011; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild,
- metadata.xml:
- Streamlined fortran-2 eclass usage
-
- 21 Jun 2011; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild,
- metadata.xml:
- Added fortran-2.eclass support
-
diff --git a/sci-biology/eval/ChangeLog b/sci-biology/eval/ChangeLog
deleted file mode 100644
index 5de140c76..000000000
--- a/sci-biology/eval/ChangeLog
+++ /dev/null
@@ -1,27 +0,0 @@
-# ChangeLog for sci-biology/eval
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> eval-2.2.8.ebuild:
- sci-biology/eval: fixed installation of perl-related files
-
- 19 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> eval-2.2.8.ebuild:
- removing KEYWORDS until the perl files are installed to some other place. At
- the moment I get: 'perl-module.eclass: Suspicious environment values found.
- PERL5LIB="/usr/lib64/perl5/vendor_perl/5.18.2/eval"'
-
- 13 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> eval-2.2.8.ebuild:
- fix Gentoo copyright header
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> eval-2.2.8.ebuild:
- clean up
-
- 04 Sep 2014; Jauhien Piatlicki <jauhien@gentoo.org> eval-2.2.8.ebuild:
- Add HOMEPAGE and LICENSE
-
-*eval-2.2.8 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +eval-2.2.8.ebuild,
- +metadata.xml:
- new package; needs perl team help to install this evil package with Eval.pm
- into PERL_PATH
diff --git a/sci-biology/exomiser-bin/ChangeLog b/sci-biology/exomiser-bin/ChangeLog
deleted file mode 100644
index d80f48755..000000000
--- a/sci-biology/exomiser-bin/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/exomiser-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*exomiser-bin-7.0.0 (05 May 2015)
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +exomiser-bin-7.0.0.ebuild, +metadata.xml:
- sci-biology/exomiser-bin: new package
diff --git a/sci-biology/exonerate-gff3/ChangeLog b/sci-biology/exonerate-gff3/ChangeLog
deleted file mode 100644
index e4ab1cc5c..000000000
--- a/sci-biology/exonerate-gff3/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/exonerate-gff3
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/exonerate-gff3: Add github to remote-id in metadata.xml
-
-*exonerate-gff3-9999 (02 Apr 2015)
-
- 02 Apr 2015; Justin Lecher <jlec@gentoo.org> +exonerate-gff3-9999.ebuild,
- +files/exonerate-gff3-9999-asneeded.patch, -exonerate-gff3-2.2.0-r1.ebuild,
- -files/exonerate-gff3-2.2.0-asneeded.patch, metadata.xml:
- sci-biology/exonerate-gff3: Move live ebuild to 9999
-
-*exonerate-gff3-2.2.0-r1 (30 Mar 2015)
-
- 30 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +exonerate-gff3-2.2.0-r1.ebuild, +files/exonerate-gff3-2.2.0-asneeded.patch,
- +metadata.xml:
- sci-biology/exonerate-gff3: an improved version of exonerate-2.2.0 with GFF3
- format output support
diff --git a/sci-biology/fastdnaml/ChangeLog b/sci-biology/fastdnaml/ChangeLog
deleted file mode 100644
index 8105e1a0e..000000000
--- a/sci-biology/fastdnaml/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/fastdnaml
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*fastdnaml-1.2.2_p10 (10 Nov 2014)
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> -fastdnaml-1.2.2.ebuild,
- +fastdnaml-1.2.2_p10.ebuild, metadata.xml:
- Bump EAPI; version Bump
-
- 07 Jul 2008; weaver <weaver@gentoo.org> +metadata.xml,
- +fastdnaml-1.2.2.ebuild:
- New ebuild, bug 114089
-
diff --git a/sci-biology/fastqc/ChangeLog b/sci-biology/fastqc/ChangeLog
deleted file mode 100644
index d69b7c382..000000000
--- a/sci-biology/fastqc/ChangeLog
+++ /dev/null
@@ -1,44 +0,0 @@
-# ChangeLog for sci-biology/fastqc
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jun 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- fastqc-0.11.3.ebuild:
- more comments on the external dependencies
-
- 10 Jun 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- fastqc-0.11.3.ebuild:
- add dependency on jhdf5; more ebuild cleanup
-
-*fastqc-0.11.3 (30 May 2015)
-
- 30 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +fastqc-0.11.3.ebuild, -fastqc-0.11.2.ebuild:
- sci-biology/fastqc: version bump, added perl dependency, Apache ant-building
- does not work still
-
- 05 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +files/build.xml,
- fastqc-0.11.2.ebuild:
- added build.xml exported by author from Eclipse IDE (it doesn't work under ant
- eclasses in my hands)
-
-*fastqc-0.11.2 (24 Feb 2015)
-
- 24 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +fastqc-0.11.2.ebuild, -fastqc-0.10.1.ebuild:
- version bump; still missing src_compile() logic
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> fastqc-0.10.1.ebuild:
- clean up
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- fastqc-0.10.1.ebuild:
- sci-biology/fastqc: reverse-engineered where sam-1.32.jar is likely coming
- from
-
-*fastqc-0.10.1 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +fastqc-0.10.1.ebuild, +metadata.xml:
- sci-biology/fastqc: a skeleton for a new perl wrapper calling java libs, need
- help
diff --git a/sci-biology/fastx_toolkit/ChangeLog b/sci-biology/fastx_toolkit/ChangeLog
deleted file mode 100644
index 530efc94f..000000000
--- a/sci-biology/fastx_toolkit/ChangeLog
+++ /dev/null
@@ -1,26 +0,0 @@
-# ChangeLog for sci-biology/fastx_toolkit
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/fastx_toolkit: Add github to remote-id in metadata.xml
-
-*fastx_toolkit-0.0.14 (20 Jan 2014)
-
- 20 Jan 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +fastx_toolkit-0.0.14.ebuild, -fastx_toolkit-0.0.13.2.ebuild:
- Version bump, releases were moved to github
-
- 20 Jan 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- fastx_toolkit-0.0.13.2.ebuild:
- Moved dependency on gtextlib
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> fastx_toolkit-0.0.13.2.ebuild,
- +metadata.xml:
- Bump to EAPI=5 and add missing metadata.xml
-
-*fastx_toolkit-0.0.13.2 (29 Aug 2013)
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +fastx_toolkit-0.0.13.2.ebuild:
- New package for FASTA/FASTQ preprocessing.
diff --git a/sci-biology/ffindex/ChangeLog b/sci-biology/ffindex/ChangeLog
deleted file mode 100644
index a998bf29b..000000000
--- a/sci-biology/ffindex/ChangeLog
+++ /dev/null
@@ -1,35 +0,0 @@
-# ChangeLog for sci-biology/ffindex
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ffindex-0.9.9.6.ebuild:
- sci-biology/ffindex: install under USE=-mpi cases as well
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ffindex-0.9.9.6.ebuild:
- sci-biology/ffindex: add DEPEND on virtual/mpi
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ffindex-0.9.9.6.ebuild:
- sci-biology/ffindex: add optional USE=mpi
-
-*ffindex-0.9.9.6 (19 Nov 2015)
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ffindex-0.9.9.6.ebuild, -ffindex-0.9.9.3.ebuild:
- sci-biology/ffindex: fix HOMEPAGE, version bump
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/ffindex: Add github to remote-id in metadata.xml
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ffindex-0.9.9.3.ebuild:
- sci-biology/ffindex: fix SRC_URI because TransDecoder which contains this
- bundled thing has moved
-
-*ffindex-0.9.9.3 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ffindex-0.9.9.3.ebuild, +metadata.xml:
- sci-biology/ffindex: new package, maybe fits better under some other herd?
diff --git a/sci-biology/flexbar/ChangeLog b/sci-biology/flexbar/ChangeLog
deleted file mode 100644
index 013aab784..000000000
--- a/sci-biology/flexbar/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/flexbar
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*flexbar-2.4 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +flexbar-2.4.ebuild,
- +metadata.xml:
- sci-biology/flexbar: new package, needs >=sci-biology/seqan-1.4.1 to appear
- first in the tree
diff --git a/sci-biology/freebayes/ChangeLog b/sci-biology/freebayes/ChangeLog
deleted file mode 100644
index 80fa1a4bf..000000000
--- a/sci-biology/freebayes/ChangeLog
+++ /dev/null
@@ -1,27 +0,0 @@
-# ChangeLog for sci-biology/freebayes
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/freebayes: Add github to remote-id in metadata.xml
-
- 13 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- freebayes-9999.ebuild:
- install also the vcftools binaries although it should be a separate package
-
- 11 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- freebayes-9999.ebuild:
- added src_install()
-
- 11 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- freebayes-9999.ebuild:
- ebuild cleanup; the git clone --recursive flag does not work
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> freebayes-9999.ebuild:
- fixed DESCRIPTION
-
-*freebayes-9999 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +freebayes-9999.ebuild, +metadata.xml:
- a new package skeleton; need to retrive from git in a recursive way
diff --git a/sci-biology/fsa/ChangeLog b/sci-biology/fsa/ChangeLog
deleted file mode 100644
index 354bc8f0b..000000000
--- a/sci-biology/fsa/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/fsa
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*fsa-1.15.7 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +fsa-1.15.7.ebuild,
- +metadata.xml:
- sci-biology/fsa: new package, enforces its own CXXFLAGS, compiles also some
- java stuff, source code does not compile
diff --git a/sci-biology/fsl/ChangeLog b/sci-biology/fsl/ChangeLog
deleted file mode 100644
index f802c575b..000000000
--- a/sci-biology/fsl/ChangeLog
+++ /dev/null
@@ -1,91 +0,0 @@
-# ChangeLog for sci-biology/fsl
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 14 Nov 2015; <chymera@gentoo.org> fsl-5.0.8.ebuild:
- sci-biology/fsl: added info about updating environment
-
- 04 Nov 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.8.ebuild:
- sci-biology/fsl: new sources location (upstream removes old sources)
-
- 09 Apr 2015; Horea Christian <h.chr@mail.ru>
- -files/fsl-5.0.4-fsldir_redux.patch:
- removed 5.0.4 redux patch
-
- 07 Apr 2015; Horea Christian <h.chr@mail.ru> -fsl-5.0.4.ebuild,
- -fsl-5.0.5.ebuild:
- removed ebuilds with unavailable sources
-
- 07 Apr 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- added new gentoo fsl-5.0.6 source location
-
- 30 Mar 2015; Horea Christian <h.chr@mail.ru>
- +files/fsl-5.0.8-fsldir_redux.patch, -files/fsl-5.0.8-redux.patch,
- fsl-5.0.8.ebuild:
- implemented 5.0.8 fsldir redux patch
-
- 30 Mar 2015; Horea Christian <h.chr@mail.ru> +files/fsl-5.0.8-redux.patch:
- 5.0.8 redux patch by François Bissey
-
- 29 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.8.ebuild:
- using the 5.0.8 headers patch
-
- 29 Mar 2015; Horea Christian <h.chr@mail.ru> +files/fsl-5.0.8-headers.patch,
- files/fsl-5.0.4-headers.patch:
- reimplmented pathc fsl-5.0.4-headers
-
- 28 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.8.ebuild:
- ported changes from 5.0.6 regarding FSLDIR
-
- 28 Mar 2015; Horea Christian <h.chr@mail.ru> files/fsl-5.0.4-headers.patch:
- hunk implemented by upstream
-
- 28 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.8.ebuild:
- using new setup patch file for new ebuild
-
- 28 Mar 2015; Horea Christian <h.chr@mail.ru> +files/fsl-5.0.8-setup.patch:
- new pathc by François Bissey
-
- 25 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.4.ebuild,
- fsl-5.0.5.ebuild, fsl-5.0.8.ebuild:
- added licences to all versions
-
- 25 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- added license for included gdchart
-
- 25 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- set the correct licences
-
- 11 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- installing fslversion
-
- 11 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- sed-ing before installing
-
- 10 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- changed grep wrapper
-
- 10 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- reformatted tcl sed calls
-
- 10 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- fixed tcl location according to instructions by kiwifb
-
- 10 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- installing fsl.sh
-
- 05 Mar 2015; Horea Christian <h.chr@mail.ru> fsl-5.0.6.ebuild:
- removing faulty check
-
- 04 Mar 2015; Horea Christian <h.chr@mail.ru> files/99fsl:
- added FSLPATH
-
-*fsl-5.0.8 (20 Feb 2015)
-
- 20 Feb 2015; Horea Christian <h.chr@mail.ru> +fsl-5.0.8.ebuild:
- bumped version
-
- 18 Oct 2013; François Bissey <francois.bissey@canterbury.ac.nz>
- +files/fsl-5.0.4-headers.patch, +files/fsl-5.0.4-setup.patch, +metadata.xml,
- fsl-5.0.4.ebuild:
- use system package, verbose build.
diff --git a/sci-biology/full_lengther_next/ChangeLog b/sci-biology/full_lengther_next/ChangeLog
deleted file mode 100644
index 6ae9e1311..000000000
--- a/sci-biology/full_lengther_next/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/full_lengther_next
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de>
- full_lengther_next-0.0.8.ebuild:
- sci-biology/full_lengther_next: Fix header, remove ruby19
-
-*full_lengther_next-0.0.8 (02 Dec 2015)
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +full_lengther_next-0.0.8.ebuild, +metadata.xml:
- sci-biology/full_lengther_next: new package
diff --git a/sci-biology/gap2caf/ChangeLog b/sci-biology/gap2caf/ChangeLog
deleted file mode 100644
index f747634d4..000000000
--- a/sci-biology/gap2caf/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/gap2caf
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 04 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gap2caf-2.1.0.ebuild:
- sci-biology/gap2caf: remove -rpath-link from src/Makefile
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> gap2caf-2.1.0.ebuild,
- metadata.xml:
- Bump to EAPI=5 and fix license; make it build with eautoreconf
diff --git a/sci-biology/gbench/ChangeLog b/sci-biology/gbench/ChangeLog
deleted file mode 100644
index a0efa74eb..000000000
--- a/sci-biology/gbench/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/gbench
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*gbench-2.3.2 (30 Jul 2011)
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +gbench-2.3.2.ebuild, +metadata.xml:
- backbone of a new package, should probably use a lot of stuff from
- ncbi-tools++ ebuild
-
diff --git a/sci-biology/gbrowse/ChangeLog b/sci-biology/gbrowse/ChangeLog
deleted file mode 100644
index 6d840a2c4..000000000
--- a/sci-biology/gbrowse/ChangeLog
+++ /dev/null
@@ -1,146 +0,0 @@
-# ChangeLog for sci-biology/gbrowse
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Nov 2014; Justin Lecher <jlec@gentoo.org> gbrowse-2.39.ebuild,
- gbrowse-2.45.ebuild, gbrowse-2.48.ebuild:
- Use perl virtuals instead of core
-
- 24 Sep 2014; Justin Lecher <jlec@gentoo.org> gbrowse-2.39.ebuild,
- gbrowse-2.45.ebuild, gbrowse-2.48.ebuild, metadata.xml:
- Bump to EAPI=5
-
- 22 May 2012; Justin Lecher <jlec@gentoo.org> gbrowse-2.39.ebuild,
- gbrowse-2.45.ebuild, gbrowse-2.48.ebuild:
- Add missing eutils.eclass, bump to EAPI=4, remove unnecessary bits
-
-*gbrowse-2.48 (28 Feb 2012)
-
- 28 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.45.ebuild, +gbrowse-2.48.ebuild:
- added dependency on <=sci-biology/primer3-2, per
- http://generic-model-organism-system-database.450254.n5.nabble.com/PrimerDesi
- gner-working-in-2-40-tp4724773p5479669.html
-
-*gbrowse-2.45 (17 Jan 2012)
-
- 17 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +gbrowse-2.45.ebuild, +files/GBrowseInstall.pm-2.45.patch:
- version bump and some fixes so that it works with webappconfig again?
-
- 17 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.39.ebuild:
- added dev-perl/TermReadKey to dependencies
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.39.ebuild, +files/disable-gbrowse_metadb_config.pl.patch,
- +files/gbrowse_metadb_config.pl.patch, +files/symlink.patch:
- Make sure portage does not run gbrowse_metadb_config.pl otherwise sandbox
- violation occurs when modifying /var/www/gbrowse2/databases/users.sqlite*
- file, maybe we could copy these during src_install to the {}, fix there and
- copy back to live filesystem? Improve error handling in
- gbrowse_metadb_config.pl. Fix symlink creation during install procedure.
- gbrowse-2.39.ebuild files/GBrowseInstall.pm-2.39.patch files/destdir.patch
- files/disable-gbrowse_metadb_config.pl.patch files/fix-PNG-export.patch
- files/gbrowse-slave.default files/gbrowse-slave.init.d
- files/gbrowse.conf.vhosts.d files/gbrowse_metadb_config.pl.patch
- files/symlink.patch
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.39.ebuild, +files/fix-PNG-export.patch:
- sci-biology/gbrowse: add missing brackets cause a perl error while exporting
- a PNG image gbrowse-2.39.ebuild files/fix-PNG-export.patch
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.39.ebuild, +files/destdir.patch:
- added support for --destdir, patch sent to upstream gbrowse-2.39.ebuild
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.39.ebuild, +files/destdir.patch:
- added support for --destdir, patch sent to upstream
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- -gbrowse-2.38.ebuild, -files/GBrowseInstall.pm-2.38.patch,
- +gbrowse-2.39.ebuild, +files/GBrowseInstall.pm-2.39.patch:
- version bump but still need to rewrite upstream's install procedure to
- prevent 'mkdir /var/lib/gbrowse2' from happening
-
-*gbrowse-2.39 (30 Jul 2011)
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- -gbrowse-2.38.ebuild, -files/GBrowseInstall.pm-2.38.patch,
- +gbrowse-2.39.ebuild, +files/GBrowseInstall.pm-2.39.patch:
- version bump but still need to rewrite upstream's install procedure to
- prevent 'mkdir /var/lib/gbrowse2' from happening
-
- 08 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- gbrowse-2.38.ebuild:
- Added dependency on >=perl-gcpan/Text-ParseWords-3.27, documented requirement
- of Bio::Root::Version >= 1.0069
-
-*gbrowse-2.38 (26 Jun 2011)
-
- 26 Jun 2011; Justin Lecher <jlec@gentoo.org> -gbrowse-2.26.ebuild,
- -files/GBrowseInstall.pm-2.26.patch,
- -files/GBrowseInstall.pm-disable-gbrowse_metadb_config.pl.pm-2.26.patch,
- -gbrowse-2.33.ebuild, -files/GBrowseInstall.pm-2.33.patch,
- +gbrowse-2.38.ebuild, +files/GBrowseInstall.pm-2.38.patch:
- Version Bump
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> -gbrowse-1.70.ebuild,
- -gbrowse-2.00.ebuild, gbrowse-2.26.ebuild, gbrowse-2.33.ebuild:
- Cleaned ebuild, 'http://search.cpan.org/CPAN' found in thirdpartymirrors
-
- 05 Feb 2010; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- Version bump
-
- 11 Oct 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- Version bump, rewrite and rename to gbrowse
-
- 29 Jul 2007; Christian Heim <phreak@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- Fixing the DEPEND/RDEPEND for the move of net-www/apache to
- www-servers/apache (#78622).
-
- 23 Nov 2006; Francesco Riosa <vivo@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- dev-db/mysql => virtual/mysql
-
- 14 Sep 2006; Olivier Fisette <ribosome@gentoo.org> metadata.xml:
- Stepping down from maintaining this package.
-
- 13 Feb 2006; Michael Cummings <mcummings@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- Virtuals for some perl-core deps
-
- 28 Nov 2005; <mcumming@gentoo.org> generic-genome-browser-1.58.ebuild:
- Switched from perl-module to perl-app eclass
-
- 19 Sep 2005; Olivier Fisette <ribosome@gentoo.org> metadata.xml:
- Maintainer changed from Stephen Diener (MIA) to Olivier Fisette.
-
- 24 May 2005; Michael Cummings <mcummings@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- dev-perl/Digest-MD5 => perl-core/Digest-MD5
-
- 24 May 2005; Michael Cummings <mcummings@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- dev-perl/CGI => perl-core/CGI
-
-*generic-genome-browser-1.58 (23 Dec 2004)
-
- 23 Dec 2004; Olivier Fisette <ribosome@gentoo.org> +metadata.xml,
- +generic-genome-browser-1.58.ebuild:
- Moved from app-sci/generic-genome-browser to
- sci-biology/generic-genome-browser.
-
- 03 Aug 2004; David Holm <dholm@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- Added to ~ppc.
-
-*generic-genome-browser-1.58 (13 Jan 2004)
-
- 13 Jan 2004; Stephen Diener <sediener@gentoo.org>
- generic-genome-browser-1.58.ebuild:
- Initial import
-
diff --git a/sci-biology/geneid/ChangeLog b/sci-biology/geneid/ChangeLog
deleted file mode 100644
index 49ef887d3..000000000
--- a/sci-biology/geneid/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/geneid
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> geneid-1.4.4.ebuild:
- clean up
-
-*geneid-1.4.4 (17 Jun 2014)
-
- 17 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/Makefile.patch, +geneid-1.4.4.ebuild, +metadata.xml:
- sci-biology/geneid: new package, works
diff --git a/sci-biology/genepop/ChangeLog b/sci-biology/genepop/ChangeLog
deleted file mode 100644
index bd166746a..000000000
--- a/sci-biology/genepop/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/genepop
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 29 Mar 2015; Justin Lecher <jlec@gentoo.org> genepop-4.2.1.ebuild:
- sci-biology/genepop: Drop unnecessary *DEPEND
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> -genepop-4.0.10.ebuild,
- +genepop-4.2.1.ebuild, metadata.xml:
- Punt base.eclass: version bump
-
- 26 Sep 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
diff --git a/sci-biology/generecon/ChangeLog b/sci-biology/generecon/ChangeLog
deleted file mode 100644
index c54860946..000000000
--- a/sci-biology/generecon/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/generecon
-# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Jun 2010; Justin Lecher <jlec@gentoo.org> +files/1.2.1-flags.patch,
- generecon-1.2.1-r1.ebuild, +files/1.2.1-gcc4.patch:
- Fixing compilation with gcc4, repecting CXXFLAGS/LDFLAGS, reMANIFEST,
- added missing dep on dev-libs/popt
-
-*generecon-1.2.1 (19 Apr 2006)
-
- 19 Apr 2006; Lucas Chiesa <lucas.chiesa@gmail.com>:
- +generecon-1.2.1.ebuild, +metadata.xml, +ChangeLog,
- Initial import. Thanks to Neil <nshephard@gmail.com>
- for the initial ebuild. Closes bug #128514.
diff --git a/sci-biology/genometools/ChangeLog b/sci-biology/genometools/ChangeLog
deleted file mode 100644
index 6c121351d..000000000
--- a/sci-biology/genometools/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/genometools
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*genometools-1.5.7 (04 Jan 2016)
-
- 04 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +genometools-1.5.7.ebuild, +metadata.xml:
- sci-biology/genometools: new package
diff --git a/sci-biology/genomeview-bin/ChangeLog b/sci-biology/genomeview-bin/ChangeLog
deleted file mode 100644
index 5d4b417c6..000000000
--- a/sci-biology/genomeview-bin/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/genomeview-bin
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org>
- genomeview-bin-2450.ebuild:
- clean up
-
-*genomeview-bin-2450 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +genomeview-bin-2450.ebuild, +metadata.xml:
- sci-biology/genomeview-bin: a skeleton for a new Java-based package, needs
- help
diff --git a/sci-biology/genseed/ChangeLog b/sci-biology/genseed/ChangeLog
deleted file mode 100644
index dadccc03a..000000000
--- a/sci-biology/genseed/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/genseed
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- genseed-1.0.22.ebuild:
- sci-biology/genseed: some cleanup
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> genseed-1.0.22.ebuild,
- metadata.xml:
- Bump to EAPI=5
-
- 13 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- genseed-1.0.22.ebuild:
- ebuild doc cleanup genseed-1.0.22.ebuild
-
-*genseed-1.0.22 (13 Dec 2011)
-
- 13 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +genseed-1.0.22.ebuild, +metadata.xml:
- A seed-driven progressive assembly program genseed-1.0.22.ebuild
diff --git a/sci-biology/gfftools/ChangeLog b/sci-biology/gfftools/ChangeLog
deleted file mode 100644
index 5e2a6e626..000000000
--- a/sci-biology/gfftools/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/gfftools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*gfftools-0.98d (12 Jan 2015)
-
- 12 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +gfftools-0.98d.ebuild, +metadata.xml:
- sci-biology/gfftools: new package
diff --git a/sci-biology/gffutils/ChangeLog b/sci-biology/gffutils/ChangeLog
deleted file mode 100644
index a9536a393..000000000
--- a/sci-biology/gffutils/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/gffutils
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/gffutils: Add github to remote-id in metadata.xml
-
- 13 Apr 2015; Justin Lecher <jlec@gentoo.org> gffutils-0.8.3.ebuild:
- sci-biology/gffutils: Streamline ebuild
-
-*gffutils-0.8.3 (12 Apr 2015)
-
- 12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +gffutils-0.8.3.ebuild,
- +metadata.xml:
- sci-biology/gffutils: add gffutils
diff --git a/sci-biology/glean/ChangeLog b/sci-biology/glean/ChangeLog
deleted file mode 100644
index 952b4bfca..000000000
--- a/sci-biology/glean/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/glean
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Jun 2015; Justin Lecher <jlec@gentoo.org> glean-1.0.1.ebuild:
- sci-biology/glean: Fix dependency problems due to recent mask of perl-core
- packages
-
-*glean-1.0.1 (02 May 2015)
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +glean-1.0.1.ebuild,
- +metadata.xml:
- sci-biology/glean: new package
diff --git a/sci-biology/grappa/ChangeLog b/sci-biology/grappa/ChangeLog
deleted file mode 100644
index 99ef56f45..000000000
--- a/sci-biology/grappa/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/grappa
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 Apr 2015; Marius Brehler <marbre@linux.sungazer.de> grappa-2.0.ebuild:
- Bump to EAPI=5
-
- 14 Jul 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by Pablo Nehab-Hess <natunobilis@gentoobr.org>
- and me
diff --git a/sci-biology/hexamer/ChangeLog b/sci-biology/hexamer/ChangeLog
deleted file mode 100644
index c693dc4ef..000000000
--- a/sci-biology/hexamer/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/hexamer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*hexamer-19990330 (01 May 2015)
-
- 01 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +hexamer-19990330.ebuild, +metadata.xml:
- sci-biology/hexamer: new package
diff --git a/sci-biology/hmmer/ChangeLog b/sci-biology/hmmer/ChangeLog
deleted file mode 100644
index 71062a091..000000000
--- a/sci-biology/hmmer/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/hmmer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- hmmer-3.1_beta2.ebuild:
- sci-biology/hmmer: fix ${S} variable
-
-*hmmer-3.1_beta2 (19 Nov 2015)
-
- 19 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +hmmer-3.1_beta2.ebuild, +metadata.xml:
- sci-biology/hmmer: version bump
diff --git a/sci-biology/hydra-sv/ChangeLog b/sci-biology/hydra-sv/ChangeLog
deleted file mode 100644
index 66892c5ca..000000000
--- a/sci-biology/hydra-sv/ChangeLog
+++ /dev/null
@@ -1,8 +0,0 @@
-# ChangeLog for sci-biology/hydra-sv
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> hydra-sv-0.5.3.ebuild,
- +metadata.xml:
- Add metadata.xml; move to EAPI=5; cleaned ebuild syntax
-
diff --git a/sci-biology/igv/ChangeLog b/sci-biology/igv/ChangeLog
deleted file mode 100644
index aee3a5070..000000000
--- a/sci-biology/igv/ChangeLog
+++ /dev/null
@@ -1,64 +0,0 @@
-# ChangeLog for sci-biology/igv
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/igv: Add github to remote-id in metadata.xml
-
-*igv-2.3.52 (11 May 2015)
-
- 11 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/2.3.52-remove-oracle.jdbc.patch, +igv-2.3.52.ebuild, igv-2.3.47.ebuild:
- sci-biology/igv: added upstream patch, version bump
-
-*igv-2.3.47 (29 Apr 2015)
-
- 29 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +igv-2.3.47.ebuild,
- -igv-2.3.44.ebuild:
- sci-biology/igv: version bump
-
- 21 Mar 2015; Johann Schmitz <ercpe@gentoo.org> igv-2.3.44.ebuild:
- Fixed upstream bug https://github.com/broadinstitute/IGV/issues/114 as
- requested by Martin Mokrejŝ (note: i've excluded the test code by passing
- -Dnotests=true to ant so it may break at some point). Also improved the
- ebuild by unbundling stuff we already have in portage. There are quite a
- number of libraries which aren't used for compilation which may be needed at
- runtime. I haven't tested the program in depth: it started at didn't throw
- errors when i clicked around - everything else is way beyond my knowledge.
- Improved the ebuild for sci-biology/igv
-
- 21 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> igv-2.3.44.ebuild:
- sci-biology/igv: fix inherit to git-r3
-
- 17 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> igv-2.3.44.ebuild:
- fix inherit to use git instead of previously used subversion
-
-*igv-2.3.44 (17 Mar 2015)
-
- 17 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +igv-2.3.44.ebuild,
- -igv-2.3.40.ebuild:
- version bump
-
-*igv-2.3.40 (05 Mar 2015)
-
- 05 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +igv-2.3.40.ebuild,
- -igv-2.0.35.ebuild:
- updated ebuild to github URLs; version bump but does not compile for me
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> -igv-2.0.32.ebuild,
- igv-2.0.35.ebuild, metadata.xml:
- sci-biology/igv: fix SLOT operators; drop KEYWORDS for live ebuilds
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> igv-2.0.35.ebuild:
- API bumped, whitespace removal
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> igv-2.0.35.ebuild:
- added some dev-java dependencies and removed some bundled .jar files
-
-*igv-2.0.35 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +igv-2.0.35.ebuild:
- sci-biology/igv-2.0.35: version bump
-
- 08 Jan 2012; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
diff --git a/sci-biology/inGAP-bin/ChangeLog b/sci-biology/inGAP-bin/ChangeLog
deleted file mode 100644
index c74ba9ea0..000000000
--- a/sci-biology/inGAP-bin/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/inGAP-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 07 Aug 2015; Justin Lecher <jlec@gentoo.org> inGAP-bin-3.0.1.ebuild:
- sci-biology/inGAP-bin: Fix CAT move and many more things
-
-*inGAP-bin-3.0.1 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +inGAP-bin-3.0.1.ebuild, +metadata.xml:
- sci-biology/inGAP-bin: new package; needs java team help
diff --git a/sci-biology/jellyfish/ChangeLog b/sci-biology/jellyfish/ChangeLog
deleted file mode 100644
index 9132f22d3..000000000
--- a/sci-biology/jellyfish/ChangeLog
+++ /dev/null
@@ -1,50 +0,0 @@
-# ChangeLog for sci-biology/jellyfish
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-1.1.11.ebuild:
- sci-biology/jellyfish: fix filename generated by pkgconfig
-
- 04 May 2015; Justin Lecher <jlec@gentoo.org> jellyfish-1.1.11.ebuild,
- jellyfish-2.1.3.ebuild, jellyfish-2.1.4.ebuild:
- sci-biology/jellyfish: Correct license from HalfLICENSE to BSD as they are
- identical
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-1.1.11.ebuild:
- sci-biology/jellyfish: added a note
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-1.1.11.ebuild:
- sci-biology/jellyfish: fixed homepage for the old version
-
-*jellyfish-1.1.11 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +jellyfish-1.1.11.ebuild, jellyfish-2.1.3.ebuild, jellyfish-2.1.4.ebuild:
- sci-biology/jellyfish: added older version, added HalfLICENSE to all ebuilds
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-2.1.3.ebuild, jellyfish-2.1.4.ebuild:
- sci-biology/jellyfish: added missing DEPEND on virtual/pkgconfig so that the
- jellyfish-2.0.pc gets installed properly
-
- 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-2.1.3.ebuild:
- sci-biology/jellyfish: fix /usr/lib64/pkgconfig/jellyfish-2.0.pc
-
- 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-2.1.3.ebuild:
- sci-biology/jellyfish: fix installation of header *.hpp files into
- /usr/include/jellyfish-2.1.3/jellyfish/ broken somewhere in upstream's code
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- jellyfish-2.1.3.ebuild:
- added a comment on old version
-
-*jellyfish-2.1.3 (02 Jul 2014)
-
- 02 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +jellyfish-2.1.3.ebuild, +metadata.xml:
- sci-biology/jellyfish: new package, works
diff --git a/sci-biology/jigsaw/ChangeLog b/sci-biology/jigsaw/ChangeLog
deleted file mode 100644
index cc4c20466..000000000
--- a/sci-biology/jigsaw/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/jigsaw
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> jigsaw-3.2.10.ebuild:
- Fix license
-
-*jigsaw-3.2.10 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +jigsaw-3.2.10.ebuild, +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/jtreeview/ChangeLog b/sci-biology/jtreeview/ChangeLog
deleted file mode 100644
index 28156a237..000000000
--- a/sci-biology/jtreeview/ChangeLog
+++ /dev/null
@@ -1,6 +0,0 @@
-# ChangeLog for sci-biology/jtreeview
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> jtreeview-1.1.6.4.ebuild:
- sci-biology/jtreeview: fix SLOT operators
diff --git a/sci-biology/kallisto/ChangeLog b/sci-biology/kallisto/ChangeLog
deleted file mode 100644
index 0542a6d4a..000000000
--- a/sci-biology/kallisto/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/kallisto
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*kallisto-0.42.1 (21 May 2015)
-*kallisto-9999 (21 May 2015)
-
- 21 May 2015; Michael Schubert <mschu.dev@gmail.com> +kallisto-0.42.1.ebuild,
- +kallisto-9999.ebuild, +metadata.xml:
- sci-biology/kallisto: add kallisto
diff --git a/sci-biology/khmer/ChangeLog b/sci-biology/khmer/ChangeLog
deleted file mode 100644
index ac1a6e3ac..000000000
--- a/sci-biology/khmer/ChangeLog
+++ /dev/null
@@ -1,39 +0,0 @@
-# ChangeLog for sci-biology/khmer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/khmer: Add github to remote-id in metadata.xml
-
-*khmer-1.0.1 (15 May 2014)
-
- 15 May 2014; Justin Lecher <jlec@gentoo.org> khmer-0.8.ebuild,
- +khmer-1.0.1.ebuild:
- Version Bump
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> khmer-9999.ebuild:
- sci-biology/khmer: upstream dropped the bundled zlib/bzip2 use if it is
- available system-wide, upstream https://github.com/ged-lab/khmer/pull/346
-
- 24 Mar 2014; Justin Lecher <jlec@gentoo.org> khmer-0.8.ebuild,
- khmer-9999.ebuild:
- Also drop sphinx as build requirement
-
- 20 Mar 2014; Justin Lecher <jlec@gentoo.org> khmer-0.8.ebuild,
- khmer-9999.ebuild:
- Drop nose requirement during build
-
-*khmer-0.8 (18 Mar 2014)
-
- 18 Mar 2014; Justin Lecher <jlec@gentoo.org> +khmer-0.8.ebuild,
- khmer-9999.ebuild:
- Unbundle zlib and bzpi2; bump to disturils-r1; respect CFLAGS
-
- 16 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> khmer-9999.ebuild:
- sci-biology/khmer: revert to distutils to obey sandbox violation
-
-*khmer-9999 (16 Mar 2014)
-
- 16 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +khmer-9999.ebuild,
- +metadata.xml:
- sci-biology/khmer: new package
diff --git a/sci-biology/kmergenie/ChangeLog b/sci-biology/kmergenie/ChangeLog
deleted file mode 100644
index d5337854c..000000000
--- a/sci-biology/kmergenie/ChangeLog
+++ /dev/null
@@ -1,25 +0,0 @@
-# ChangeLog for sci-biology/kmergenie
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 29 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- kmergenie-1.6971.ebuild:
- sci-biology/kmergenie: fix installation of launcher script
-
-*kmergenie-1.6971 (30 Mar 2015)
-
- 30 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +kmergenie-1.6971.ebuild, -kmergenie-1.6950.ebuild:
- sci-biology/kmergenie: version bump
-
- 18 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- kmergenie-1.6950.ebuild:
- install the real binary, add dependency of external python module; the DEPEND
- line still needs a fix: DEPEND: Invalid atom (Invalid use dep: ''), token 1
-
-*kmergenie-1.6950 (13 Mar 2015)
-
- 13 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +kmergenie-1.6950.ebuild, +metadata.xml:
- new package; the k-mer size is set during compilation, use 'k=121 emerge
- kmergenie' to set your k-mer size
diff --git a/sci-biology/lastz/ChangeLog b/sci-biology/lastz/ChangeLog
deleted file mode 100644
index 46d8fbdb9..000000000
--- a/sci-biology/lastz/ChangeLog
+++ /dev/null
@@ -1,26 +0,0 @@
-# ChangeLog for sci-biology/lastz
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*lastz-1.03.66 (02 May 2015)
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/lastz-1.03.66-build.patch, +lastz-1.03.66.ebuild,
- -files/lastz-1.03.34-build.patch, -lastz-1.03.34.ebuild:
- sci-biology/lastz: version bump
-
- 12 Jun 2013; Justin Lecher <jlec@gentoo.org> -lastz-1.02.00.ebuild,
- +lastz-1.03.34.ebuild, +files/lastz-1.03.34-build.patch, metadata.xml:
- Version Bump; fix license; bump to EAPI=5; fix buildsystem
-
-*lastz-1.03.34 (12 Jun 2013)
-
- 12 Jun 2013; Justin Lecher <jlec@gentoo.org> -lastz-1.02.00.ebuild,
- +lastz-1.03.34.ebuild, +files/lastz-1.03.34-build.patch, metadata.xml:
- Version Bump; fix license; bump to EAPI=5; fix buildsystem
-
-*lastz-1.02.00 (16 Jan 2012)
-
- 16 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +lastz-1.02.00.ebuild, +metadata.xml:
- initial ebuild
diff --git a/sci-biology/libgtextutils/ChangeLog b/sci-biology/libgtextutils/ChangeLog
deleted file mode 100644
index 8d6e47a32..000000000
--- a/sci-biology/libgtextutils/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/libgtextutils
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*libgtextutils-0.6.1 (29 Aug 2013)
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- -libgtextutils-0.6.ebuild, +libgtextutils-0.6.1.ebuild:
- Version bump.
-
-*libgtextutils-0.6 (16 Jan 2012)
-
- 16 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +libgtextutils-0.6.ebuild, +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/lighter/ChangeLog b/sci-biology/lighter/ChangeLog
deleted file mode 100644
index 6b8d9e62f..000000000
--- a/sci-biology/lighter/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/lighter
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/lighter: Add github to remote-id in metadata.xml
-
-*lighter-9999 (01 May 2015)
-
- 01 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +lighter-9999.ebuild, +metadata.xml:
- sci-libs/lighter: new package; contains IUSE=threads but ... does the Makefile
- need a tweak for -lpthreads ? ;-). Go ahead and fix this.
diff --git a/sci-biology/mRNAmarkup/ChangeLog b/sci-biology/mRNAmarkup/ChangeLog
deleted file mode 100644
index e5311ca5b..000000000
--- a/sci-biology/mRNAmarkup/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/mRNAmarkup
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*mRNAmarkup-1.0 (05 Jan 2016)
-*mRNAmarkup-1.1 (05 Jan 2016)
-
- 05 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +mRNAmarkup-1.0.ebuild, +mRNAmarkup-1.1.ebuild, +metadata.xml:
- sci-biology/mRNAmarkup: new package
diff --git a/sci-biology/maker/ChangeLog b/sci-biology/maker/ChangeLog
deleted file mode 100644
index c06e4830b..000000000
--- a/sci-biology/maker/ChangeLog
+++ /dev/null
@@ -1,49 +0,0 @@
-# ChangeLog for sci-biology/maker
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 31 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: DEPEND on external sci-biology/GAL package; rename
- 'compare' binary as agreed with upstream
-
- 30 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: do install from a top-level directory; there is a file
- collision with /usr/bin/compare from media-gfx/imagemagick and with
- /usr/bin/fasta_tool from sci-biology/trinityrnaseq
-
- 30 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: added openmpi as dependency; define our own src_install();
- add einfo message; added dev-perl/forks-shared dependency
-
- 30 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: added dependency on dev-perl/forks
-
- 18 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: drop duplicated Module-Build requirement
-
- 18 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: fix Module-Build dependency
-
- 01 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: add DEPENDency on dev-perl/Module-Build
-
- 20 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: document opened Gentoo bugzilla tickets
-
- 20 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: depend on mpich2 when USE=mpi, add back hard DEPENDency on
- repeatmasker because install process does not continue without it, document
- additional perl modules not available in portage
-
- 20 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> maker-2.31.8.ebuild:
- sci-biology/maker: respect USE=mpi, remove hard DEPENDency on repeatmasker-
- libraries which are fetch restricted
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> MAKER-9999.ebuild:
- added license
-
-*MAKER-9999 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +MAKER-9999.ebuild,
- +metadata.xml:
- a skeleton for a new package
diff --git a/sci-biology/manatee-igs/ChangeLog b/sci-biology/manatee-igs/ChangeLog
deleted file mode 100644
index e998238ce..000000000
--- a/sci-biology/manatee-igs/ChangeLog
+++ /dev/null
@@ -1,34 +0,0 @@
-# ChangeLog for sci-biology/manatee-igs
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 27 Oct 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- manatee-igs-2.23.1.ebuild:
- sci-biology/manatee-igs: depend on virtual/mysql
-
- 15 Jun 2015; Justin Lecher <jlec@gentoo.org> manatee-igs-2.23.1.ebuild:
- sci-biology/manatee-igs: Fix dependency problems due to recent mask of perl-
- core packages
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- manatee-igs-2.23.1.ebuild:
- Both versions of manatee have same license, so rename unify the license
- filename.
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- manatee-igs-2.23.1.ebuild:
- Renamed the License file.
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- manatee-igs-2.23.1.ebuild:
- Added dev-perl/Bio-DB-Das-Chado and improved description line.
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> manatee-igs-2.23.1.ebuild,
- metadata.xml:
- Shorten DESCRIPTION
-
-*manatee-igs-2.23.1 (08 Jan 2012)
-
- 08 Jan 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +manatee-igs-2.23.1.ebuild, +metadata.xml:
- new package for prokaryotic genome annotation and editing
diff --git a/sci-biology/manatee-jcvi/ChangeLog b/sci-biology/manatee-jcvi/ChangeLog
deleted file mode 100644
index 503585bab..000000000
--- a/sci-biology/manatee-jcvi/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/manatee-jcvi
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 27 Oct 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- manatee-jcvi-2.4.3.ebuild:
- sci-biology/manatee-jcvi: depend virtual/mysql
-
- 13 Nov 2014; Justin Lecher <jlec@gentoo.org> manatee-jcvi-2.4.3.ebuild,
- metadata.xml:
- Use perl virtuals instead of core
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> manatee-jcvi-2.4.3.ebuild:
- clean up
-
-*manatee-jcvi-2.4.3 (29 Aug 2013)
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +manatee-jcvi-2.4.3.ebuild, +metadata.xml:
- Initial ebuild for the other version of manatee, using different database
- schema.
diff --git a/sci-biology/mavid/ChangeLog b/sci-biology/mavid/ChangeLog
deleted file mode 100644
index 4fe4856d0..000000000
--- a/sci-biology/mavid/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/mavid
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> mavid-2.0.4.ebuild,
- metadata.xml:
- Bump EAPI
-
- 08 Jul 2008; weaver <weaver@gentoo.org> +metadata.xml,
- +mavid-2.0.4.ebuild:
- New ebuild, bug 207250
-
diff --git a/sci-biology/merlin/ChangeLog b/sci-biology/merlin/ChangeLog
deleted file mode 100644
index bcbbb7e81..000000000
--- a/sci-biology/merlin/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/merlin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Marius Brehler <marbre@linux.sungazer.de>
- merlin-1.1.2.ebuild:
- Move to EAPI=5.
-
- 21 Apr 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, bug 121921, thanks to Neil <nshephard@gmail.com>
-
diff --git a/sci-biology/metaseq/ChangeLog b/sci-biology/metaseq/ChangeLog
deleted file mode 100644
index 6bcb4fb53..000000000
--- a/sci-biology/metaseq/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/metaseq
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/metaseq: Add github to remote-id in metadata.xml
-
- 13 Apr 2015; Justin Lecher <jlec@gentoo.org> metaseq-0.5.3.ebuild:
- sci-biology/metaseq: Streamline ebuild
-
-*metaseq-0.5.3 (12 Apr 2015)
-
- 12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +metadata.xml,
- +metaseq-0.5.3.ebuild:
- sci-biology/metaseq: add metaseq
diff --git a/sci-biology/mgblast/ChangeLog b/sci-biology/mgblast/ChangeLog
deleted file mode 100644
index bea8e9a39..000000000
--- a/sci-biology/mgblast/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/mgblast
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> mgblast-0.1.ebuild:
- clean up
-
-*mgblast-0.1 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +mgblast-0.1.ebuild, +metadata.xml:
- initial ebuild but while it needs an old version of ncbi-tools source tree to
- build ... it is not tested yet
diff --git a/sci-biology/minced/ChangeLog b/sci-biology/minced/ChangeLog
deleted file mode 100644
index 43149a67f..000000000
--- a/sci-biology/minced/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/minced
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/minced: Add github to remote-id in metadata.xml
-
- 29 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> minced-9999.ebuild:
- sci-biology/minced: fixed the launcher
-
-*minced-9999 (27 Apr 2015)
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +minced-9999.ebuild:
- sci-biology/minced: new package; the /usr/bin/minced wrapper for the
- minced.jar does not work
diff --git a/sci-biology/mip-scaffolder/ChangeLog b/sci-biology/mip-scaffolder/ChangeLog
deleted file mode 100644
index c7ff337d3..000000000
--- a/sci-biology/mip-scaffolder/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/mip-scaffolder
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- mip-scaffolder-0.6.ebuild:
- sci-biology/mip-scaffolder: respect CXXFLAGS although the Makefile speaks
- about CFLAGS
-
- 17 Feb 2015; Christoph Junghans <ottxor@gentoo.org> mip-scaffolder-0.6.ebuild:
- fixed LICENSE
-
-*mip-scaffolder-0.6 (14 Feb 2015)
-
- 14 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +mip-scaffolder-0.6.ebuild:
- new package
diff --git a/sci-biology/mira/ChangeLog b/sci-biology/mira/ChangeLog
deleted file mode 100644
index 19e5978f4..000000000
--- a/sci-biology/mira/ChangeLog
+++ /dev/null
@@ -1,138 +0,0 @@
-# ChangeLog for sci-biology/mira
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 21 Jul 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/mira-4.9.5-fix-miramer-symlink-error.patch, mira-4.9.5.ebuild:
- sci-biology/mira-4.9.5: fix missing AND in Makefile; install config files for
- staden and consed viewers/editors (maybe use config protect?)
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/mira: Updating remote-id in metadata.xml
-
- 25 Jan 2015; Justin Lecher <jlec@gentoo.org> mira-4.0.2.ebuild,
- +files/mira-4.0.2-cout.patch:
- Build fix for newer gcc, #537564
-
-*mira-4.0.2 (23 Jan 2015)
-
- 23 Jan 2015; Justin Lecher <jlec@gentoo.org> +mira-4.0.2.ebuild:
- Version Bump, thanks Martin Mokrejš for the work
-
- 23 Jan 2015; Justin Lecher <jlec@gentoo.org> mira-3.9.18.ebuild:
- Add workaroung for m4 dir location, #536172
-
- 14 Jan 2014; Justin Lecher <jlec@gentoo.org> -mira-3.2.1.ebuild:
- Drop old
-
- 14 Jan 2014; Agostino Sarubbo <ago@gentoo.org> mira-3.9.18.ebuild:
- Stable for x86, wrt bug #497218
-
- 12 Jan 2014; Pacho Ramos <pacho@gentoo.org> mira-3.9.18.ebuild:
- amd64 stable, bug #497218
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> mira-3.2.1.ebuild:
- Punt base.eclass
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> -mira-3.2.1-r1.ebuild,
- -mira-3.4.0.2.ebuild:
- Drop old
-
-*mira-3.9.18 (07 Jul 2013)
-
- 07 Jul 2013; Justin Lecher <jlec@gentoo.org> +mira-3.9.18.ebuild:
- Version Bump; fixed compilation with dev-libs/boost-1.53.0 and some libtool
- versions, #450322; thanks Martin Mokrejs for all his work
-
- 11 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Drop Andrey as maintainer so that bugs get assigned to sci-biology directly
-
-*mira-3.4.0.2 (07 Nov 2012)
-
- 07 Nov 2012; Justin Lecher <jlec@gentoo.org> mira-3.2.1.ebuild,
- mira-3.2.1-r1.ebuild, +mira-3.4.0.2.ebuild,
- +files/mira-3.4.0.2-boost-1.50.patch:
- Version Bump, #377807
-
-*mira-3.2.1-r1 (07 Nov 2012)
-
- 07 Nov 2012; Justin Lecher <jlec@gentoo.org> mira-3.2.1.ebuild,
- +mira-3.2.1-r1.ebuild, +files/mira-3.2.1-boost-1.50.patch:
- Fix for boost >1.50, #425468
-
- 08 Jul 2012; Justin Lecher <jlec@gentoo.org> -mira-3.0.5.ebuild,
- -mira-3.2.0.ebuild:
- Drop old
-
- 25 Jun 2012; Jeff Horelick <jdhore@gentoo.org> mira-3.2.1.ebuild:
- marked x86 per bug 418439
-
- 24 Jun 2012; Agostino Sarubbo <ago@gentoo.org> mira-3.2.1.ebuild:
- Stable for amd64, wrt bug #418439
-
- 23 Jun 2012; Kacper Kowalik <xarthisius.kk@gmail.com> mira-3.2.1.ebuild:
- Don't install docs that are no longer there, thanks to David Abbott for the
- patch
-
-*mira-3.2.1 (21 May 2011)
-
- 21 May 2011; Andrey Kislyuk <weaver@gentoo.org> +mira-3.2.1.ebuild:
- Version bump and fix bug 367921
-
- 11 Feb 2011; Markos Chandras <hwoarang@gentoo.org> mira-3.2.0.ebuild:
- Stable on amd64 wrt bug #353568
-
- 07 Feb 2011; Pawel Hajdan jr <phajdan.jr@gentoo.org> mira-3.2.0.ebuild:
- x86 stable wrt bug #353568
-
- 17 Oct 2010; Andrey Kislyuk <weaver@gentoo.org> mira-3.2.0.ebuild:
- Remove doc USE flag and dependency, workaround for bug 340419
-
-*mira-3.2.0 (26 Sep 2010)
-
- 26 Sep 2010; Andrey Kislyuk <weaver@gentoo.org> -mira-3.0.0.ebuild,
- -mira-3.0.3.ebuild, +mira-3.2.0.ebuild:
- Version bump, drop old
-
- 28 Jun 2010; Justin Lecher <jlec@gentoo.org> mira-3.0.0.ebuild,
- mira-3.0.3.ebuild, mira-3.0.5.ebuild:
- Prepared for prefix, #325929
-
-*mira-3.0.5 (05 May 2010)
-
- 05 May 2010; Andrey Kislyuk <weaver@gentoo.org> +mira-3.0.5.ebuild:
- Version bump
-
-*mira-3.0.3 (18 Mar 2010)
-
- 18 Mar 2010; Andrey Kislyuk <weaver@gentoo.org> -mira-3.0.2.ebuild,
- +mira-3.0.3.ebuild:
- Hotfix from upstream
-
-*mira-3.0.2 (10 Mar 2010)
-
- 10 Mar 2010; Andrey Kislyuk <weaver@gentoo.org> -mira-3.0.1.ebuild,
- +mira-3.0.2.ebuild:
- Hotfix from upstream
-
-*mira-3.0.1 (06 Mar 2010)
-
- 06 Mar 2010; Andrey Kislyuk <weaver@gentoo.org> +mira-3.0.1.ebuild:
- Version bump (bugfix release)
-
- 25 Feb 2010; Samuli Suominen <ssuominen@gentoo.org> mira-3.0.0.ebuild,
- +files/mira-3.0.0-asneeded.patch:
- Fix ax_lib_expat.m4 macro to not use LDFLAGS for passing libraries wrt
- #305547 by Kacper Kowalik.
-
- 03 Feb 2010; Andrey Kislyuk <weaver@gentoo.org> mira-3.0.0.ebuild:
- add eautoreconf
-
- 03 Feb 2010; Andrey Kislyuk <weaver@gentoo.org> mira-3.0.0.ebuild:
- Install 3rd party files
-
-*mira-3.0.0 (02 Feb 2010)
-
- 02 Feb 2010; Andrey Kislyuk <weaver@gentoo.org> +metadata.xml,
- +mira-3.0.0.ebuild:
- New package, ebuild written by me
diff --git a/sci-biology/miranda/ChangeLog b/sci-biology/miranda/ChangeLog
deleted file mode 100644
index d7cca6b15..000000000
--- a/sci-biology/miranda/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/miranda
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> miranda-3.3a.ebuild,
- metadata.xml:
- Punt base.eclass
-
-*miranda-3.3a (08 Nov 2010)
-
- 08 Nov 2010; Kacper Kowalik <xarthisius@gentoo.org> -miranda-3.0.ebuild,
- +miranda-3.3a.ebuild:
- Version bump wrt bug 144316. Thanks to Joel Berendzen <joelb@lanl.gov> for
- the report.
-
- 10 Mar 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package sci-biology/miranda, bug 144316. Ebuild written by me.
-
diff --git a/sci-biology/mne-python/ChangeLog b/sci-biology/mne-python/ChangeLog
deleted file mode 100644
index 677d3d382..000000000
--- a/sci-biology/mne-python/ChangeLog
+++ /dev/null
@@ -1,8 +0,0 @@
-# ChangeLog for sci-biology/mne-python
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> mne-python-0.7.ebuild,
- mne-python-9999.ebuild, +metadata.xml:
- Add missing metadata.xml; drop USE=cuda; fix python deps
-
diff --git a/sci-biology/mosaik/ChangeLog b/sci-biology/mosaik/ChangeLog
deleted file mode 100644
index d7c69a2ad..000000000
--- a/sci-biology/mosaik/ChangeLog
+++ /dev/null
@@ -1,43 +0,0 @@
-# ChangeLog for sci-biology/mosaik
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*mosaik-2.2.3 (15 Jan 2015)
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +mosaik-2.2.3.ebuild, -mosaik-2.1.33.ebuild:
- version bump, masking a crappy package until at least the Makefile's
- propagate an error code back to upstream caller, https://code.google.com/p
- /mosaik-aligner/issues/detail?id=135
-
- 07 Jan 2014; Justin Lecher <jlec@gentoo.org> mosaik-2.1.33.ebuild,
- mosaik-9999.ebuild, metadata.xml:
- Readd ebuild
-
- 01 Jun 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- mosaik-1.1.0021.ebuild:
- improved die() message to inform user that gcc-4.5.3 does not work while
- gcc-4.3.6 does
-
- 16 Mar 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- mosaik-2.1.33.ebuild, mosaik-9999.ebuild:
- sci-biology/mosaik: masking mosaik-2.1.33 mosaik-9999
-
-*mosaik-9999 (15 Mar 2012)
-
- 15 Mar 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- mosaik-2.1.33.ebuild, +mosaik-9999.ebuild:
- version bump for 2.1.33 and GIT HEAD, neither compiles so far; upstream
- re-contacted mosaik-2.1.33.ebuild mosaik-9999.ebuild
-
-*mosaik-2.1.33 (15 Mar 2012)
-*mosaik-1.1.0021 (15 Mar 2012)
-
- 15 Mar 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +mosaik-1.1.0021.ebuild, +mosaik-2.1.33.ebuild:
- version bump, added the pdf documentation to SRC_URI, the compile process
- leaks through many 'Fastq.cpp:224: error: conditional expression between
- distinct pointer types 'gzFile_s*' and 'FILE*' lacks a cast' messages in
- Fastq.cpp:224, Fastq.cpp:226, Fasta.cpp:258, Fasta.cpp:260, Fasta.cpp:266,
- Fasta.cpp:268, but the package itself installs and executes at least
- mosaik-1.1.0021.ebuild
diff --git a/sci-biology/mothur/ChangeLog b/sci-biology/mothur/ChangeLog
deleted file mode 100644
index 7e1aa76c8..000000000
--- a/sci-biology/mothur/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/mothur
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*mothur-1.36.1 (30 Nov 2015)
-
- 30 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/mothur-1.36.1-makefile.patch, +metadata.xml, +mothur-1.36.1.ebuild:
- sci-biology/mothur: version bump; update makefile patch, the other patch from
- 1.27 series seems not necessary anymore; added few more IUSE values but the
- makefile could ideally respect them before forcing boost and zlib libraries
- into LIBS
diff --git a/sci-biology/mreps/ChangeLog b/sci-biology/mreps/ChangeLog
deleted file mode 100644
index 2ae4bfd31..000000000
--- a/sci-biology/mreps/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/mreps
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> mreps-2.5.ebuild, metadata.xml:
- Bump to EAPI=5; respect CC
-
- 04 Feb 2009; weaver <weaver@gentoo.org> ChangeLog:
- New package sci-biology/mreps, bug 257676
-
diff --git a/sci-biology/mrfast/ChangeLog b/sci-biology/mrfast/ChangeLog
deleted file mode 100644
index 9c4757f04..000000000
--- a/sci-biology/mrfast/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/mrfast
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/mrfast: Updating remote-id in metadata.xml
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> -mrfast-2.1.0.3.ebuild,
- +mrfast-2.6.0.1.ebuild, -files/mrfast-2.1.0.3-disc_buffer_overflow.patch,
- metadata.xml:
- Version Bump; punt base.eclass
diff --git a/sci-biology/mricron/ChangeLog b/sci-biology/mricron/ChangeLog
deleted file mode 100644
index b7ec07332..000000000
--- a/sci-biology/mricron/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/mricron
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de> mricron-9999.ebuild:
- sci-biology/mricron: Fix minorsyn
-
- 06 Dec 2015; Horea Christian <h.chr@mail.ru> mricron-9999.ebuild:
- sci-biology/mricron: added icon and gnome desktop entry
-
- 04 Dec 2015; Horea Christian <h.chr@mail.ru> mricron-9999.ebuild:
- sci-biology/mricron: corrected binary paths
-
-*mricron-9999 (04 Dec 2015)
-
- 04 Dec 2015; Horea Christian <h.chr@mail.ru> +metadata.xml,
- +mricron-9999.ebuild:
- sci-biology/mricron: new ebuild
diff --git a/sci-biology/mrsfast/ChangeLog b/sci-biology/mrsfast/ChangeLog
deleted file mode 100644
index 7078d4878..000000000
--- a/sci-biology/mrsfast/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/mrsfast
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/mrsfast: Updating remote-id in metadata.xml
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> -mrsfast-2.3.0.2.ebuild,
- +mrsfast-2.6.0.4.ebuild, metadata.xml:
- Version Bump; punt base.eclass
diff --git a/sci-biology/ncbi-blast+/ChangeLog b/sci-biology/ncbi-blast+/ChangeLog
deleted file mode 100644
index 4e0171084..000000000
--- a/sci-biology/ncbi-blast+/ChangeLog
+++ /dev/null
@@ -1,27 +0,0 @@
-# ChangeLog for sci-biology/ncbi-blast+
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*ncbi-blast+-2.2.31 (22 Nov 2015)
-
- 22 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/ncbi-blast+-2.2.30__fix_lib_deps.patch, +ncbi-blast+-2.2.31.ebuild,
- -files/fix_lib_deps.patch, ncbi-blast+-2.2.30.ebuild:
- sci-biology/ncbi-blast+-2.2.31: version bump, seems that some parts of the
- ncbi-blast+-2.2.30__fix_lib_deps.patch could/should be re-used
-
- 17 Jul 2015; Andrew Savchenko <bircoph@gentoo.org> metadata.xml:
- Add sqlite3 flag description.
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> ncbi-blast+-2.2.30.ebuild:
- sci-biology/ncbi-blast+: fix SLOT operators; correct python deps
-
- 15 Jan 2015; Christoph Junghans <ottxor@gentoo.org> metadata.xml:
- added use flags to metadata.xml
-
-*ncbi-blast+-2.2.30 (14 Jan 2015)
-
- 14 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ncbi-blast+-2.2.30.ebuild, +files/disable-testsuite-compilation.txt,
- +files/fix_lib_deps.patch, +metadata.xml:
- ebuild derived from ncbi-tools++-12.0.0.ebuild with a Debian patch
diff --git a/sci-biology/ncbi-tools++/ChangeLog b/sci-biology/ncbi-tools++/ChangeLog
deleted file mode 100644
index cdfa99a34..000000000
--- a/sci-biology/ncbi-tools++/ChangeLog
+++ /dev/null
@@ -1,146 +0,0 @@
-# ChangeLog for sci-biology/ncbi-tools++
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Jul 2015; Andrew Savchenko <bircoph@gentoo.org> metadata.xml:
- Add sqlite3 flag description.
-
- 23 Jun 2015; Horea Christian <h.chr@mail.ru> ncbi-tools++-12.0.0.ebuild:
- added dep needed at build-time
-
- 11 Jun 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/ncbi-tools++-12.0.0-bdb6.patch, ncbi-tools++-12.0.0.ebuild:
- sci-biology/ncbi-tools++: added upstream patch to compile against sys-
- libs/db-6.0.30
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-12.0.0.ebuild:
- sci-biology/ncbi-tools++: re-added KEYWORDS
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> ncbi-tools++-12.0.0.ebuild:
- sci-biology/ncbi-tools++: fix SLOT operators; correct python deps
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org>
- -files/ncbi-tools++-12.0.0-as-needed.patch,
- -files/ncbi-tools++-9.0.0-as-needed.patch,
- -files/ncbi-tools++-9.0.0-conf-opts.patch,
- -files/ncbi-tools++-9.0.0-disable_test_compress.patch,
- -files/ncbi-tools++-9.0.0-fix-creaders-linking.patch,
- -files/ncbi-tools++-9.0.0-fix-order-of-libs.patch,
- -files/ncbi-tools++-9.0.0-fix-svn-URL-upstream.patch, -files/ncbi-tools++-9.0.
- 0-fix-undef-reference-to-GenBankReaders_Register_Id1.patch,
- -files/ncbi-tools++-9.0.0-remove-LZO-definition-upstream.patch,
- -ncbi-tools++-9.0.0-r1.ebuild, -ncbi-tools++-9.0.0.ebuild, metadata.xml,
- ncbi-tools++-12.0.0.ebuild:
- major clean, drop old version and unused patches
-
- 23 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> ChangeLog:
- add patches for 12.0.0 to support autoconf-2.60 (so far 2.59 was needed),
- patches from upstream:
- http://www.ncbi.nlm.nih.gov/viewvc/v1?view=revision&revision=62745
- http://www.ncbi.nlm.nih.gov/viewvc/v1?view=revision&revision=62750
- http://www.ncbi.nlm.nih.gov/viewvc/v1?view=revision&revision=62760
-
- 14 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-9.0.0-r1.ebuild:
- Support at least when user passes USE="gnutls -ssl -openssl" but what we
- really want is to prefer gnutls over openssl if both are available on the
- system.
-
- 14 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-9.0.0-r1.ebuild,
- +files/ncbi-tools++-9.0.0-remove-LZO-definition-upstream.patch:
- Add upstream ncbi-tools++-9.0.0-remove-LZO-definition-upstream.patch with
- line
- offset changes.
-
- 13 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-9.0.0-r1.ebuild, ncbi-tools++-12.0.0.ebuild,
- +files/ncbi-tools++-9.0.0-fix-svn-URL-upstream.patch,
- +files/ncbi-tools++-12.0.0-fix-svn-URL-upstream.patch:
- Fix URL to point to a public SVN repository (an upstream patch from email
- list):
-
- Date: Sun, 28 Jul 2013 22:05:34 -0400
- CC: <cpp@ncbi.nlm.nih.gov>
- Subject: Re: [C++] new project startup example needed
-
- 13 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-12.0.0.ebuild,
- files/ncbi-tools++-9.0.0-fix-creaders-linking.patch,
- +files/ncbi-tools++-12.0.0-fix-FreeTDS-upstream.patch,
- files/ncbi-tools++-12.0.0-fix-creaders-linking.patch:
- Added an upstream patch from:
-
- Date: Wed, 28 Aug 2013 10:50:29 -0400
- List cpp <cpp@ncbi.nlm.nih.gov>
- Subject: Re: [C++] error building ncbi toolkit v.12.0.0
-
- Fixed line offsets in the ncbi-tools++-12.0.0-fix-creaders-linking.patch
- file.
-
- Fixed file path in ncbi-tools++-9.0.0-fix-creaders-linking.patch header.
-
- The patches copied blindly from ncbi-tools++-9.0.0-r1 under 12.0.0 need to be
- adjusted still to have correct line numbers. They do NOT apply cleanly at the
- moment.
-
- 13 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-9.0.0-r1.ebuild, ncbi-tools++-12.0.0.ebuild,
- files/ncbi-tools++-9.0.0-as-needed.patch,
- +files/ncbi-tools++-9.0.0-fix-undef-reference-to-GenBankReaders_Register_Id1.
- patch, files/ncbi-tools++-12.0.0-as-needed.patch:
- files/ncbi-tools++-12.0.0-as-needed.patch
- files/ncbi-tools++-9.0.0-as-needed.patch
-
- Remove redundant connect per message from Aaron Ucko <ucko@ncbi.nlm.nih.gov>:
-
- > +DLL_LIB = xncbi xutil seqset connect xconnect xnetblast
- Then simply remove connect, which is redundant with xconnect. (connect
- consists of code shared with NCBI's C Toolkit; xconnect adds a C++
- layer.)
-
-
- 13 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-12.0.0.ebuild,
- +files/ncbi-tools++-12.0.0-fix-creaders-linking.patch:
- No, the fix-creaders-linking is needed for 12.0.0 as well.
-
-*ncbi-tools++-12.0.0 (13 Sep 2013)
-
- 13 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ncbi-tools++-12.0.0.ebuild, +files/ncbi-tools++-12.0.0-as-needed.patch,
- +files/ncbi-tools++-12.0.0-conf-opts.patch:
- Latest release which needs so far only the two Gentoo patches. Would
- be better to drop ${PV} from their filename to avoid their duplication
- I think.
-
- 13 Sep 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ncbi-tools++-9.0.0-r1.ebuild,
- +files/ncbi-tools++-9.0.0-fix-creaders-linking.patch:
- add glew to dependencies inferrred via mesa
- fix lib/libxobjread.so: undefined reference to 'AlignmentFileFree' message by
- upstream patch
-
- 12 Jun 2013; Justin Lecher <jlec@gentoo.org> ncbi-tools++-9.0.0-r1.ebuild:
- Drop empty line
-
- 12 Jun 2013; Justin Lecher <jlec@gentoo.org> ncbi-tools++-9.0.0-r1.ebuild:
- Drop autotools.eclass
-
- 01 Apr 2013; Justin Lecher <jlec@gentoo.org> ncbi-tools++-9.0.0-r1.ebuild:
- Some Prefix love
-
- 01 Apr 2013; Justin Lecher <jlec@gentoo.org> ncbi-tools++-9.0.0-r1.ebuild:
- Some Prefix love
-
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Document USE
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> ncbi-tools++-9.0.0.ebuild,
- ncbi-tools++-9.0.0-r1.ebuild:
- Clean whitespace errors
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> +metadata.xml:
- Add metadata.xml
diff --git a/sci-biology/nesoni/ChangeLog b/sci-biology/nesoni/ChangeLog
deleted file mode 100644
index eb6e66e28..000000000
--- a/sci-biology/nesoni/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/nesoni
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*nesoni-0.128 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +nesoni-0.128.ebuild, -nesoni-0.117.ebuild:
- sci-biology/nesoni: version bump
-
-*nesoni-0.117 (15 Apr 2014)
-
- 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +nesoni-0.117.ebuild:
- sci-biology/nesoni: new package, needs some dev-lang/R -based packages to be
- installed
diff --git a/sci-biology/ngs_backbone/ChangeLog b/sci-biology/ngs_backbone/ChangeLog
deleted file mode 100644
index 40345640f..000000000
--- a/sci-biology/ngs_backbone/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/ngs_backbone
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- ngs_backbone-9999.ebuild:
- added PYTHON_USEDEP
-
- 12 Sep 2014; Christoph Junghans <ottxor@gentoo.org> ngs_backbone-9999.ebuild:
- drop ~x86 as deps are missing
-
-*ngs_backbone-9999 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ngs_backbone-9999.ebuild, +metadata.xml:
- Initial ebuild, external optional but highly recommended dependency on
- blast2GO aka b2g4pipe is not resolved
diff --git a/sci-biology/ngsview/ChangeLog b/sci-biology/ngsview/ChangeLog
deleted file mode 100644
index f4df1d8f5..000000000
--- a/sci-biology/ngsview/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/ngsview
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/ngsview: Updating remote-id in metadata.xml
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/ngsview: Updating remote-id in metadata.xml
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> ngsview-0.91.ebuild:
- sci-biology/ngsview: fix SLOT operators
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> ngsview-0.91.ebuild:
- fixed DESCRIPTION
-
-*ngsview-0.91 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ngsview-0.91.ebuild, +metadata.xml:
- needs qt team help
diff --git a/sci-biology/nilearn/ChangeLog b/sci-biology/nilearn/ChangeLog
deleted file mode 100644
index e3359f136..000000000
--- a/sci-biology/nilearn/ChangeLog
+++ /dev/null
@@ -1,35 +0,0 @@
-# ChangeLog for dev-python/nilearn
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 19 Nov 2015; <chymera@gentoo.org> nilearn-0.1.4.1.ebuild,
- nilearn-9999.ebuild:
- dev-python/nilearn: moved deps to DEPEND
-
- 19 Nov 2015; <chymera@gentoo.org> nilearn-0.1.4.1.ebuild,
- nilearn-9999.ebuild:
- dev-python/nilearn: added test flag and test dependency
-
- 14 Nov 2015; Horea Christian <h.chr@mail.ru> nilearn-0.1.4.1.ebuild:
- dev-python/nilearn: added test function
-
- 19 Oct 2015; Horea Christian <h.chr@mail.ru> nilearn-9999.ebuild:
- dev-python/nilearn: plot use flag in live ebuild as well
-
- 19 Oct 2015; Horea Christian <h.chr@mail.ru> metadata.xml,
- nilearn-0.1.4.1.ebuild:
- dev-python/nilearn: added plot use flag, added MY_PV, removed deprecated
- dependency version
-
- 19 Oct 2015; Horea Christian <h.chr@mail.ru> nilearn-9999.ebuild:
- dev-python/nilearn: dropped empty IUSE, added PYTHON_USEDEP
-
- 19 Oct 2015; Horea Christian <h.chr@mail.ru> nilearn-0.1.4.1.ebuild:
- dev-python/nilearn: corrected format, added PYTHON_USEDEP, removed emtty IUSE
-
-*nilearn-0.1.4.1 (19 Oct 2015)
-*nilearn-9999 (19 Oct 2015)
-
- 19 Oct 2015; Horea Christian <h.chr@mail.ru> +metadata.xml,
- +nilearn-0.1.4.1.ebuild, +nilearn-9999.ebuild:
- dev-python/nilearn: new package
diff --git a/sci-biology/nistats/ChangeLog b/sci-biology/nistats/ChangeLog
deleted file mode 100644
index df4c8c902..000000000
--- a/sci-biology/nistats/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/nistats
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 19 Dec 2015; Horea Christian <h.chr@mail.ru> nistats-9999.ebuild:
- sci-biology/nistats: no longer depending on setuptools at runtime
-
-*nistats-9999 (17 Dec 2015)
-
- 17 Dec 2015; Horea Christian <h.chr@mail.ru> +metadata.xml,
- +nistats-9999.ebuild:
- sci-biology/nistats: added new package
diff --git a/sci-biology/nrcl/ChangeLog b/sci-biology/nrcl/ChangeLog
deleted file mode 100644
index 135c271d3..000000000
--- a/sci-biology/nrcl/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/nrcl
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> +files/110625-build.patch,
- -files/0.1-build.patch:
- mv 0.1-build.patch 110625-build.patch
-
-*nrcl-110625 (25 Jun 2011)
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> +files/0.1-build.patch,
- -nrcl-0.1.ebuild, +nrcl-110625.ebuild:
- Cleaned ebuild
-
diff --git a/sci-biology/nwalign/ChangeLog b/sci-biology/nwalign/ChangeLog
deleted file mode 100644
index 925b62c9b..000000000
--- a/sci-biology/nwalign/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/nwalign
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*nwalign-0.3.1 (04 Jan 2016)
-
- 04 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +nwalign-0.3.1.ebuild:
- sci-biology/nwalign: new python package
diff --git a/sci-biology/pairagon/ChangeLog b/sci-biology/pairagon/ChangeLog
deleted file mode 100644
index 9534819bd..000000000
--- a/sci-biology/pairagon/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/pairagon
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> pairagon-1.1.ebuild:
- sci-biology/pairagon: fixed installation of perl-related files
-
- 19 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> pairagon-1.1.ebuild:
- removing KEYWORDS until the perl files are installed to some other place. At
- the moment I get: 'perl-module.eclass: Suspicious environment values found.
- PERL5LIB="/usr/lib64/perl5/vendor_perl/5.18.2/pairagon"'
-
-*pairagon-1.1 (05 Mar 2015)
-
- 05 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +pairagon-1.1.ebuild:
- new package
diff --git a/sci-biology/parafly/ChangeLog b/sci-biology/parafly/ChangeLog
deleted file mode 100644
index a0b2db8aa..000000000
--- a/sci-biology/parafly/ChangeLog
+++ /dev/null
@@ -1,22 +0,0 @@
-# ChangeLog for sci-biology/parafly
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 31 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- parafly-20130121.ebuild:
- sci-biology/parafly: note code bundled under trinity-plugins
-
- 31 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- parafly-20130121.ebuild:
- sci-biology/parafly: updating moved SRC_URI of a last release left on
- sourceforge
-
- 20 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- parafly-20130121.ebuild:
- sci-biology/parafly: document a recent upstream bugreport from github
-
-*parafly-20130121 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +parafly-20130121.ebuild:
- sci-biology/parafly: new package
diff --git a/sci-biology/pb-honey/ChangeLog b/sci-biology/pb-honey/ChangeLog
deleted file mode 100644
index bc8fe6b42..000000000
--- a/sci-biology/pb-honey/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/pb-honey
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- pb-honey-14.1.15.ebuild:
- added PYTHON_USEDEP
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> pb-honey-14.1.15.ebuild:
- Fix license; add missing []
diff --git a/sci-biology/pb-jelly/ChangeLog b/sci-biology/pb-jelly/ChangeLog
deleted file mode 100644
index 737c55ffb..000000000
--- a/sci-biology/pb-jelly/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/pb-jelly
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> pb-jelly-14.9.9.ebuild:
- Fix license; add missing []
-
-*pb-jelly-14.9.9 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +pb-jelly-14.9.9.ebuild, +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/perlprimer/ChangeLog b/sci-biology/perlprimer/ChangeLog
deleted file mode 100644
index bac2acc79..000000000
--- a/sci-biology/perlprimer/ChangeLog
+++ /dev/null
@@ -1,19 +0,0 @@
-# ChangeLog for sci-biology/perlprimer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/perlprimer: Updating remote-id in metadata.xml
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> -perlprimer-1.1.17.ebuild,
- +perlprimer-1.1.21.ebuild, metadata.xml:
- Bump to EAPI=5; Version Bump
-
-*perlprimer-1.1.17 (30 Apr 2009)
-
- 30 Apr 2009; Justin Lecher (jlec) <jlec@j-schmitz.net>
- -perlprimer-1.1.14.ebuild, +perlprimer-1.1.17.ebuild, -files/gcg.801,
- +metadata.xml:
- cleaned up ebuild
- Added ~x86 as requested in bug 231230
- removed redundant database
diff --git a/sci-biology/phusion/ChangeLog b/sci-biology/phusion/ChangeLog
deleted file mode 100644
index 36818c593..000000000
--- a/sci-biology/phusion/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/phusion
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*phusion-2.1c (02 May 2015)
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +phusion-2.1c.ebuild:
- sci-biology/phusion: clarified missing LICENSE, have asked upstream for
- clarification
diff --git a/sci-biology/pileup/ChangeLog b/sci-biology/pileup/ChangeLog
deleted file mode 100644
index 935c29eda..000000000
--- a/sci-biology/pileup/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/pileup
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> pileup-0.6.ebuild:
- added license
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> pileup-0.6.ebuild,
- metadata.xml:
- dropped KEYWORDS due to misisng LICENSE
-
-*pileup-0.6 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +pileup-0.6.ebuild,
- +metadata.xml:
- new package; a pileup pipeline used along SSAHA2
diff --git a/sci-biology/plinkseq/ChangeLog b/sci-biology/plinkseq/ChangeLog
deleted file mode 100644
index 4669cd9f8..000000000
--- a/sci-biology/plinkseq/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/plinkseq
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- plinkseq-0.10.ebuild:
- reported a file collision to upstream
-
-*plinkseq-0.10 (10 May 2015)
-
- 10 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +plinkseq-0.10.ebuild:
- sci-biology/plinkseq: new package
diff --git a/sci-biology/polyphen/ChangeLog b/sci-biology/polyphen/ChangeLog
deleted file mode 100644
index 29c7f9f9f..000000000
--- a/sci-biology/polyphen/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/polyphen
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*polyphen-2.2.2 (05 May 2015)
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +polyphen-2.2.2.ebuild:
- sci-biology/polyphen: package skeleton
diff --git a/sci-biology/primerD/ChangeLog b/sci-biology/primerD/ChangeLog
deleted file mode 100644
index 5d7abeb58..000000000
--- a/sci-biology/primerD/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/primerD
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- primerD-1.0.0.ebuild:
- edit the bundled Makefile
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> primerD-1.0.0.ebuild:
- Fix license
-
-*primerD-1.0.0 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +primerD-1.0.0.ebuild, +metadata.xml:
- ebuild skeleton
diff --git a/sci-biology/proda/ChangeLog b/sci-biology/proda/ChangeLog
deleted file mode 100644
index ce22a87eb..000000000
--- a/sci-biology/proda/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/proda
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Nov 2014; Justin Lecher <jlec@gentoo.org> proda-1.0.ebuild,
- +files/proda-1.0-buildsystem.patch, +files/proda-1.0-newgcc.patch:
- Bump EAPI; Update for newer compiler
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Fixed herd entry in metadata.xml
-
- 27 Apr 2007; Andrey Kislyuk <weaver@horizon.ath.cx> +proda-1.0.ebuild:
- Mass import from sunrise
-
- 22 Apr 2007; Andrey Kislyuk <weaver@horizon.ath.cx> +proda-1.0.ebuild, +metadata.xml:
- new package (bug 175524)
-
diff --git a/sci-biology/prokka/ChangeLog b/sci-biology/prokka/ChangeLog
deleted file mode 100644
index da69be964..000000000
--- a/sci-biology/prokka/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/prokka
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> prokka-1.11.ebuild:
- sci-biology/prokka: require either of ncbi-tools++ or ncbi-blast+
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> prokka-1.11.ebuild:
- sci-biology/prokka: more DEPs recorded
-
-*prokka-1.11 (05 May 2015)
-
- 05 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +prokka-1.11.ebuild:
- sci-biology/prokka: new package
diff --git a/sci-biology/prot4EST/ChangeLog b/sci-biology/prot4EST/ChangeLog
deleted file mode 100644
index cea842cef..000000000
--- a/sci-biology/prot4EST/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/prot4EST
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Nov 2014; Justin Lecher <jlec@gentoo.org> prot4EST-3.1b.ebuild:
- Use perl virtuals instead of core
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> prot4EST-3.1b.ebuild:
- added license
-
- 24 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml:
- sci-biology/prot4EST: new package, missing LICENSE, missing dev-perl/ deps
diff --git a/sci-biology/psychopy/ChangeLog b/sci-biology/psychopy/ChangeLog
deleted file mode 100644
index 68a3ae6b3..000000000
--- a/sci-biology/psychopy/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/psychopy
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 02 Apr 2015; Justin Lecher <jlec@gentoo.org> psychopy-1.78.00.ebuild:
- sci-biology/psychopy: Drop eselect dependency
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> -psychopy-1.75.01.ebuild,
- -psychopy-1.77.02.ebuild, psychopy-1.78.00.ebuild, psychopy-9999.ebuild:
- sci-biology/psychopy: fix SLOT operators
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> psychopy-9999.ebuild:
- Switch from git-2 to git-r3
-
- 10 Jun 2013; Justin Lecher <jlec@gentoo.org> psychopy-1.75.01.ebuild,
- psychopy-9999.ebuild, metadata.xml:
- Add missing python use dep, move to virtual/python-imaging
diff --git a/sci-biology/pvmsx/ChangeLog b/sci-biology/pvmsx/ChangeLog
deleted file mode 100644
index e735c1c4e..000000000
--- a/sci-biology/pvmsx/ChangeLog
+++ /dev/null
@@ -1,7 +0,0 @@
-# ChangeLog for sci-biology/pvmsx
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> pvmsx-0.1.ebuild, metadata.xml:
- Soma QA and polishing
-
diff --git a/sci-biology/pybedtools/ChangeLog b/sci-biology/pybedtools/ChangeLog
deleted file mode 100644
index 4b43438d8..000000000
--- a/sci-biology/pybedtools/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/pybedtools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/pybedtools: Add github to remote-id in metadata.xml
-
- 13 Apr 2015; Justin Lecher <jlec@gentoo.org> pybedtools-0.6.9.ebuild:
- sci-biology/pybedtools: Streamline ebuild
-
-*pybedtools-0.6.9 (12 Apr 2015)
-
- 12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +metadata.xml,
- +pybedtools-0.6.9.ebuild:
- sci-biology/pybedtools: add pybedtools
diff --git a/sci-biology/pybrain/ChangeLog b/sci-biology/pybrain/ChangeLog
deleted file mode 100644
index 12d004434..000000000
--- a/sci-biology/pybrain/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/pybrain
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> pybrain-9999.ebuild:
- Switch from git-2 to git-r3
-
- 13 Jun 2013; Justin Lecher <jlec@gentoo.org> pybrain-9999.ebuild,
- metadata.xml:
- Bump to EAPI=5 and distutils-r1.eclass
-
- 10 Dec 2012; Justin Lecher <jlec@gentoo.org> pybrain-9999.ebuild,
- metadata.xml:
- Drop comments from metadata.xml; drop keywords from live ebuild
-
diff --git a/sci-biology/pyfaidx/ChangeLog b/sci-biology/pyfaidx/ChangeLog
deleted file mode 100644
index ae669f37b..000000000
--- a/sci-biology/pyfaidx/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/pyfaidx
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Apr 2015; Justin Lecher <jlec@gentoo.org> pyfaidx-0.3.8.ebuild:
- sci-biology/pyfaidx: Streamline ebuild
-
-*pyfaidx-0.3.8 (12 Apr 2015)
-
- 12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +metadata.xml,
- +pyfaidx-0.3.8.ebuild:
- sci-biology/pyfaidx: add pyfaidx
diff --git a/sci-biology/pysam/ChangeLog b/sci-biology/pysam/ChangeLog
deleted file mode 100644
index 492a5fcb1..000000000
--- a/sci-biology/pysam/ChangeLog
+++ /dev/null
@@ -1,27 +0,0 @@
-# ChangeLog for sci-biology/pysam
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*pysam-0.8.4 (03 Dec 2015)
-
- 03 Dec 2015; Ted Tanberry <ted.tanberry@gmail.com> +pysam-0.8.4.ebuild:
- sci-biology/pysam: version bump to 0.8.4
-
- 04 May 2015; Marius Brehler <marbre@linux.sungazer.de> pysam-0.7.5.ebuild:
- Fix deps
-
- 04 May 2015; Marius Brehler <marbre@linux.sungazer.de> pysam-0.6-r2.ebuild:
- Drop keywords due to broken deps
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- pysam-0.6-r2.ebuild, pysam-0.7.5.ebuild:
- added PYTHON_USEDEP
-
-*pysam-0.6-r2 (30 Apr 2015)
-*pysam-0.7.5 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +pysam-0.6-r2.ebuild, +pysam-0.7.5.ebuild:
- sci-biology/pysam: version bump; noted samtools dependencies as mentioned in
- download page accessible from https://code.google.com/p/pysam/downloads/list ;
- also added PYTHON_COMPAT for python3
diff --git a/sci-biology/pysurfer/ChangeLog b/sci-biology/pysurfer/ChangeLog
deleted file mode 100644
index 8ae3d3a8f..000000000
--- a/sci-biology/pysurfer/ChangeLog
+++ /dev/null
@@ -1,24 +0,0 @@
-# ChangeLog for sci-biology/pysurfer
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 13 Oct 2015; Horea Christian <h.chr@mail.ru> files/0.6-headless_build.patch:
- sci-biology/pysurfer: removed deprecated patch section
-
- 12 Oct 2015; Horea Christian <h.chr@mail.ru> files/0.6-headless_build.patch:
- sci-biology/pysurfer: updated patch
-
- 30 Sep 2015; Horea Christian <h.chr@mail.ru> +files/0.6-headless_build.patch:
- added correspondng patch for =sci-biology/pysurfer-0.6
-
-*pysurfer-0.6 (30 Sep 2015)
-
- 30 Sep 2015; Horea Christian <h.chr@mail.ru> +pysurfer-0.6.ebuild:
- sci-biology/pysurfer: version bump
-
- 30 Sep 2015; Horea Christian <h.chr@mail.ru> pysurfer-0.4.ebuild:
- new manifest and archive name for sci-biology/pysurfer
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> pysurfer-0.4.ebuild,
- pysurfer-9999.ebuild, +metadata.xml:
- Switch from git-2 to git-r3
diff --git a/sci-biology/quast/ChangeLog b/sci-biology/quast/ChangeLog
deleted file mode 100644
index 3917ad528..000000000
--- a/sci-biology/quast/ChangeLog
+++ /dev/null
@@ -1,21 +0,0 @@
-# ChangeLog for sci-biology/quast
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> quast-2.3.ebuild:
- added a note about additional bundled package licenses
-
-*quast-2.3 (15 Jan 2015)
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +quast-2.3.ebuild,
- -quast-2.2.ebuild:
- version bump
-
- 13 Nov 2014; Justin Lecher <jlec@gentoo.org> quast-2.2.ebuild, metadata.xml:
- Bump to new python eclasses
-
-*quast-2.2 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +quast-2.2.ebuild:
- sci-biology/quast: a skeleton for a new python-based package, need help
diff --git a/sci-biology/quicktree/ChangeLog b/sci-biology/quicktree/ChangeLog
deleted file mode 100644
index 72f601715..000000000
--- a/sci-biology/quicktree/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-biology/quicktree
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> quicktree-1.1-r1.ebuild,
- metadata.xml:
- Bump to EAPI=5 and fix license
-
-*quicktree-1.1-r1 (08 Nov 2010)
-
- 08 Nov 2010; Kacper Kowalik <xarthisius@gentoo.org> -quicktree-1.1.ebuild,
- +quicktree-1.1-r1.ebuild:
- Respect CC,CFLAGS,LDFLAGS. Drop empty deps, add missing die. Fix SRC_URI
- wrt bug 344715. Thanks to Joel Berendzen <joelb@lanl.gov> for the report.
-
- 11 Sep 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
-
diff --git a/sci-biology/quorum/ChangeLog b/sci-biology/quorum/ChangeLog
deleted file mode 100644
index dd908e23a..000000000
--- a/sci-biology/quorum/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/quorum
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> quorum-0.2.1.ebuild,
- quorum-1.0.0.ebuild:
- sci-biology/quorum: avoid full path on linker commandline
- /usr/lib64/libjellyfish-2.0.so
-
-*quorum-0.2.1 (30 Apr 2015)
-*quorum-1.0.0 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +quorum-0.2.1.ebuild, +quorum-1.0.0.ebuild:
- sci-biology/quorum: new package
diff --git a/sci-biology/repeatmasker-libraries/ChangeLog b/sci-biology/repeatmasker-libraries/ChangeLog
deleted file mode 100644
index 1c630fa9d..000000000
--- a/sci-biology/repeatmasker-libraries/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/repeatmasker-libraries
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*repeatmasker-libraries-20150807 (20 Nov 2015)
-
- 20 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +repeatmasker-libraries-20150807.ebuild:
- sci-biology/repeatmasker-libraries: version bump and improve einfo navigation
- for current website layout
diff --git a/sci-biology/repeatmasker/ChangeLog b/sci-biology/repeatmasker/ChangeLog
deleted file mode 100644
index 0c329e5d9..000000000
--- a/sci-biology/repeatmasker/ChangeLog
+++ /dev/null
@@ -1,35 +0,0 @@
-# ChangeLog for sci-biology/repeatmasker
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*repeatmasker-4.0.6-r2 (06 Dec 2015)
-
- 06 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +repeatmasker-4.0.6-r2.ebuild, -repeatmasker-4.0.6-r1.ebuild:
- sci-biology/repeatmasker: actually the the utilities do not include Libraries/
- in the paths so install it along all other *.pm files
-
-*repeatmasker-4.0.6-r1 (06 Dec 2015)
-
- 06 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +repeatmasker-4.0.6-r1.ebuild, -repeatmasker-4.0.6.ebuild:
- sci-biology/repeatmasker: fix ebuild so that it installs files in a proper
- location
-
- 01 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/repeatmasker-4.0.6__configure.patch,
- -files/RepeatMasker-open-4-0-1__configure.patch,
- -files/RepeatMasker-open-4-0-6__configure.patch:
- sci-biology/repeatmasker: rename and move the patch file; drop old patch for a
- previous version
-
- 24 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- repeatmasker-4.0.1-r1.ebuild:
- sci-biology/repeatmasker: improve einfo message
-
-*repeatmasker-4.0.1-r1 (24 Nov 2015)
-
- 24 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/configure.patch, +metadata.xml, +repeatmasker-4.0.1-r1.ebuild:
- sci-biology/repeatmasker: heavily patch configure to return error codes and
- die upon error; add more DEPENDencies
diff --git a/sci-biology/reptile/ChangeLog b/sci-biology/reptile/ChangeLog
deleted file mode 100644
index de729df39..000000000
--- a/sci-biology/reptile/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/reptile
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*reptile-1.1 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +reptile-1.1.ebuild:
- sci-biology/reptile: new package
diff --git a/sci-biology/rnaplex/ChangeLog b/sci-biology/rnaplex/ChangeLog
deleted file mode 100644
index ca7831f31..000000000
--- a/sci-biology/rnaplex/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/rnaplex
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Marius Brehler <marbre@linux.sungazer.de>
- rnaplex-0.2.ebuild:
- Move to EAPI=5; Update homepage and SRC_URI; Cleanup.
-
- 29 Apr 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
-
diff --git a/sci-biology/ruffus/ChangeLog b/sci-biology/ruffus/ChangeLog
deleted file mode 100644
index 39d3d96ea..000000000
--- a/sci-biology/ruffus/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/ruffus
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*ruffus-9999 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ruffus-9999.ebuild, +metadata.xml:
- new package, works but needs some versioned checkout
-
diff --git a/sci-biology/rum/ChangeLog b/sci-biology/rum/ChangeLog
deleted file mode 100644
index bd5157757..000000000
--- a/sci-biology/rum/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/rum
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> rum-2.0.5.5.ebuild:
- sci-biology/rum: Use perl virtuals, add missing die; use PN for tarball
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/rum: Add github to remote-id in metadata.xml
-
-*rum-2.0.5.5 (18 Apr 2015)
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +rum-2.0.5.5.ebuild:
- sci-biology/rum: new package
diff --git a/sci-biology/sabre/ChangeLog b/sci-biology/sabre/ChangeLog
deleted file mode 100644
index 2d317d111..000000000
--- a/sci-biology/sabre/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/sabre
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/sabre: Add github to remote-id in metadata.xml
-
- 09 Feb 2015; Marius Brehler <marbre@linux.sungazer.de> sabre-9999.ebuild:
- Switch from git-2 to git-r3; Cleanup
-
-*sabre-9999 (15 Jan 2015)
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +sabre-9999.ebuild:
- sci-biology/sabre: new package
diff --git a/sci-biology/salmon/ChangeLog b/sci-biology/salmon/ChangeLog
deleted file mode 100644
index 478ddfa79..000000000
--- a/sci-biology/salmon/ChangeLog
+++ /dev/null
@@ -1,28 +0,0 @@
-# ChangeLog for sci-biology/salmon
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*salmon-0.4.2 (16 Aug 2015)
-
- 16 Aug 2015; Michael Schubert <mschu.dev@gmail.com> +salmon-0.4.2.ebuild,
- salmon-0.3.2.ebuild, salmon-9999.ebuild:
- sci-biology/salmon: fix deps & version bump to 0.4.2
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/salmon: Add github to remote-id in metadata.xml
-
- 23 May 2015; Michael Schubert <mschu.dev@gmail.com>
- files/salmon-0.3.2-no-boost-static.patch:
- sci-biology/salmon: clean patch
-
- 21 May 2015; Michael Schubert <mschu.dev@gmail.com> salmon-0.3.2.ebuild,
- salmon-9999.ebuild:
- sci-biology/salmon: streamline ebuild
-
-*salmon-0.3.2 (21 May 2015)
-*salmon-9999 (21 May 2015)
-
- 21 May 2015; Michael Schubert <mschu.dev@gmail.com>
- +files/salmon-0.3.2-no-boost-static.patch, +metadata.xml,
- +salmon-0.3.2.ebuild, +salmon-9999.ebuild:
- sci-biology/salmon: add salmon
diff --git a/sci-biology/samstat/ChangeLog b/sci-biology/samstat/ChangeLog
deleted file mode 100644
index 528491d9b..000000000
--- a/sci-biology/samstat/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/samstat
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> samstat-20130708.ebuild:
- fixed DESCRIPTION
-
-*samstat-20130708 (16 Mar 2014)
-
- 16 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +samstat-20130708.ebuild:
- sci-biology/samstat: new package
diff --git a/sci-biology/samtools/ChangeLog b/sci-biology/samtools/ChangeLog
deleted file mode 100644
index a34a1d7ce..000000000
--- a/sci-biology/samtools/ChangeLog
+++ /dev/null
@@ -1,20 +0,0 @@
-# ChangeLog for sci-biology/samtools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 08 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/samtools: Updating remote-id in metadata.xml
-
-*samtools-1.0-r2 (11 May 2015)
-*samtools-1.1-r1 (11 May 2015)
-*samtools-1.2-r1 (11 May 2015)
-
- 11 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/samtools-1.0-buildsystem.patch, +files/samtools-1.0-rmdup.patch,
- +files/samtools-1.1-buildsystem.patch, +files/samtools-1.1-rmdup.patch,
- +files/samtools-1.2-buildsystem.patch, +files/samtools-1.2-rmdup.patch,
- +metadata.xml, +samtools-1.0-r2.ebuild, +samtools-1.1-r1.ebuild,
- +samtools-1.2-r1.ebuild:
- sci-biology/samtools: fix core dump on 'samtools rmdup' by adding
- bam_get_library() from an upstream patch from
- https://github.com/samtools/samtools/issues/138
diff --git a/sci-biology/scaffold_builder/ChangeLog b/sci-biology/scaffold_builder/ChangeLog
deleted file mode 100644
index c3df5787b..000000000
--- a/sci-biology/scaffold_builder/ChangeLog
+++ /dev/null
@@ -1,29 +0,0 @@
-# ChangeLog for sci-biology/scaffold_builder
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- scaffold_builder-20131122.ebuild:
- sci-biology/scaffold_builder: set proper LICENSE to the one mentioned in the
- http://www.scfbm.org/content/pdf/1751-0473-8-23.pdf article and also in the
- COPYING.txt file in the distribution .zip file
-
- 26 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- scaffold_builder-20131122.ebuild:
- sci-biology/scaffold_builder: noted RDEPEND, added second HOMEPAGE
-
-*scaffold_builder-20131122 (30 Jan 2015)
-
- 30 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +scaffold_builder-20131122.ebuild, -scaffold_builder-20130403.ebuild:
- version bump
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org>
- scaffold_builder-20130403.ebuild:
- added license
-
-*scaffold_builder-20130403 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +scaffold_builder-20130403.ebuild, +metadata.xml:
- new package but with a missing LICENSE
diff --git a/sci-biology/scan_for_matches/ChangeLog b/sci-biology/scan_for_matches/ChangeLog
deleted file mode 100644
index f8398b643..000000000
--- a/sci-biology/scan_for_matches/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/scan_for_matches
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*scan_for_matches-20121220 (28 Mar 2014)
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +scan_for_matches-20121220.ebuild:
- sci-biology/scan_for_matches: new package, LICENSE not explicitly avalaible
- hence seems public-domain fits?
diff --git a/sci-biology/scbi_blast/ChangeLog b/sci-biology/scbi_blast/ChangeLog
deleted file mode 100644
index f171b82a9..000000000
--- a/sci-biology/scbi_blast/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/scbi_blast
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de>
- scbi_blast-0.0.37.ebuild:
- sci-biology/scbi_blast: Fix header, remove ruby19
-
-*scbi_blast-0.0.37 (02 Dec 2015)
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +scbi_blast-0.0.37.ebuild:
- sci-biology/scbi_blast: new package
diff --git a/sci-biology/scbi_fasta/ChangeLog b/sci-biology/scbi_fasta/ChangeLog
deleted file mode 100644
index 70011e294..000000000
--- a/sci-biology/scbi_fasta/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/scbi_fasta
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de>
- scbi_fasta-0.1.9.ebuild:
- sci-biology/scbi_fasta: Fix header, remove ruby19
-
-*scbi_fasta-0.1.9 (02 Dec 2015)
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +scbi_fasta-0.1.9.ebuild:
- sci-biology/scbi_fasta: new package
diff --git a/sci-biology/scbi_mapreduce/ChangeLog b/sci-biology/scbi_mapreduce/ChangeLog
deleted file mode 100644
index bf955f239..000000000
--- a/sci-biology/scbi_mapreduce/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/scbi_mapreduce
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de>
- scbi_mapreduce-0.0.40.ebuild:
- sci-biology/scbi_mapreduce: Fix header, remove ruby19
-
-*scbi_mapreduce-0.0.40 (02 Dec 2015)
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +scbi_mapreduce-0.0.40.ebuild:
- sci-biology/scbi_mapreduce: new package
diff --git a/sci-biology/scbi_plot/ChangeLog b/sci-biology/scbi_plot/ChangeLog
deleted file mode 100644
index 570e5a1bd..000000000
--- a/sci-biology/scbi_plot/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/scbi_plot
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 25 Dec 2015; Marius Brehler <marbre@linux.sungazer.de> scbi_plot-0.0.7.ebuild:
- sci-biology/scbi_plot: Fix header, remove ruby19
-
-*scbi_plot-0.0.7 (02 Dec 2015)
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +scbi_plot-0.0.7.ebuild:
- sci-biology/scbi_plot: new package
diff --git a/sci-biology/screed/ChangeLog b/sci-biology/screed/ChangeLog
deleted file mode 100644
index 2f03f49d8..000000000
--- a/sci-biology/screed/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/screed
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/screed: Add github to remote-id in metadata.xml
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> screed-0.7.1.ebuild:
- removed empty line
-
-*screed-0.7.1 (18 Mar 2014)
-
- 18 Mar 2014; Justin Lecher <jlec@gentoo.org> +screed-0.7.1.ebuild,
- +metadata.xml:
- New addition written by me
diff --git a/sci-biology/scythe/ChangeLog b/sci-biology/scythe/ChangeLog
deleted file mode 100644
index d58089e6d..000000000
--- a/sci-biology/scythe/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/scythe
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/scythe: Add github to remote-id in metadata.xml
-
-*scythe-0.992 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +scythe-0.992.ebuild, +metadata.xml:
- bundled Makefile forces -O3, wrong version number, but works
diff --git a/sci-biology/seqclean/ChangeLog b/sci-biology/seqclean/ChangeLog
deleted file mode 100644
index fea9c3957..000000000
--- a/sci-biology/seqclean/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/seqclean
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- seqclean-110625.ebuild:
- sci-biology/seqclean: bump EAPI
-
- 17 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- seqclean-110625.ebuild:
- sci-biology/seqclean: fix language
-
-*seqclean-110625 (25 Jun 2011)
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> -seqclean-0.1.ebuild,
- +seqclean-110625.ebuild, +files/seqclean-110625-build.patch:
- Cleaned ebuild
diff --git a/sci-biology/seqtools/ChangeLog b/sci-biology/seqtools/ChangeLog
deleted file mode 100644
index a9192f088..000000000
--- a/sci-biology/seqtools/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/seqtools
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*seqtools-4.34.5 (12 May 2015)
-
- 12 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +seqtools-4.34.5.ebuild, -seqtools-4.34.1.ebuild:
- sci-biology/seqtools: upstream fixed dependency issues so that MAKEOPTS=-j5
- works; version bump
-
-*seqtools-4.34.1 (09 May 2015)
-
- 09 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +seqtools-4.34.1.ebuild:
- sci-biology/seqtools: new package, said to be derived from AceDB (watch for
- file collisions?)
diff --git a/sci-biology/sequin/ChangeLog b/sci-biology/sequin/ChangeLog
deleted file mode 100644
index c0b830fb6..000000000
--- a/sci-biology/sequin/ChangeLog
+++ /dev/null
@@ -1,17 +0,0 @@
-# ChangeLog for sci-biology/sequin
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*sequin-20121202 (16 Jun 2013)
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -sequin-20090722.ebuild,
- +sequin-20121202.ebuild:
- Version Bump; restrcit license; add QA_PREBUILT for binaries; install html
- files into sys path
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Fixed herd entry in metadata.xml
-
- 19 Oct 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
-
diff --git a/sci-biology/sff_dump/ChangeLog b/sci-biology/sff_dump/ChangeLog
deleted file mode 100644
index 1cd77142f..000000000
--- a/sci-biology/sff_dump/ChangeLog
+++ /dev/null
@@ -1,7 +0,0 @@
-# ChangeLog for sci-biology/sff_dump
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 24 Jun 2011; Justin Lecher <jlec@gentoo.org> sff_dump-1.04.ebuild:
- Some ebuild cleaning
-
diff --git a/sci-biology/sga/ChangeLog b/sci-biology/sga/ChangeLog
deleted file mode 100644
index 3e6b68d1f..000000000
--- a/sci-biology/sga/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/sga
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/sga: Add github to remote-id in metadata.xml
-
- 09 Feb 2015; Marius Brehler <marbre@linux.sungazer.de> sga-9999.ebuild:
- Switch from git-2 to git-r3; Cleanup; Add missing die
-
-*sga-9999 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +sga-9999.ebuild,
- +metadata.xml:
- new package; forces its own optimization flags but works fine
diff --git a/sci-biology/sgp2/ChangeLog b/sci-biology/sgp2/ChangeLog
deleted file mode 100644
index 0bf5d5738..000000000
--- a/sci-biology/sgp2/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/sgp2
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> sgp2-1.1.ebuild:
- sci-biology/sgp2: add dobin() call
-
-*sgp2-1.1 (17 Jun 2014)
-
- 17 Jun 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/Makefile.patch, +metadata.xml, +sgp2-1.1.ebuild:
- sci-biology/sgp2: new package, works
diff --git a/sci-biology/sickle/ChangeLog b/sci-biology/sickle/ChangeLog
deleted file mode 100644
index 80afb2cc5..000000000
--- a/sci-biology/sickle/ChangeLog
+++ /dev/null
@@ -1,22 +0,0 @@
-# ChangeLog for sci-biology/sickle
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/sickle: Add github to remote-id in metadata.xml
-
-*sickle-1.33 (09 Mar 2015)
-
- 09 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +sickle-1.33.ebuild,
- sickle-9999.ebuild:
- respect CC and CFLAGS; added an ebuild for latest release tarball, works
-
- 15 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> sickle-9999.ebuild:
- correct package description
-
-*sickle-9999 (24 Mar 2014)
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +sickle-9999.ebuild, +metadata.xml:
- simple ebuild, bundled Makefile forces compile flags, program version, but
- works
diff --git a/sci-biology/signalp/ChangeLog b/sci-biology/signalp/ChangeLog
deleted file mode 100644
index b7fc490ff..000000000
--- a/sci-biology/signalp/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/signalp
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 Apr 2015; Marius Brehler <marbre@linux.sungazer.de> signalp-3.0.ebuild:
- Bump to EAPI=5
-
- 27 Jun 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
- signalp-3.0.ebuild:
- QA fixes
-
- 01 Apr 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package sci-biology/signalp, ebuild written by me
diff --git a/sci-biology/skewer-bin/ChangeLog b/sci-biology/skewer-bin/ChangeLog
deleted file mode 100644
index a67360b6b..000000000
--- a/sci-biology/skewer-bin/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/skewer-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- skewer-bin-0.1.104.ebuild:
- sci-biology/skewer: fix typo
-
-*skewer-bin-0.1.104 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +skewer-bin-0.1.104.ebuild:
- sci-biology/skewer-bin: new package
diff --git a/sci-biology/smalt-bin/ChangeLog b/sci-biology/smalt-bin/ChangeLog
deleted file mode 100644
index f6ade7009..000000000
--- a/sci-biology/smalt-bin/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/smalt-bin
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*smalt-bin-0.7.4 (16 Jun 2013)
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -smalt-bin-0.5.1.ebuild,
- +smalt-bin-0.7.4.ebuild, metadata.xml:
- Version Bump; restrict license; add QA_PREBUILT for binaries
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> smalt-bin-0.5.1.ebuild:
- Cleaned ebuild and fixed LICENSE
-
diff --git a/sci-biology/snap/ChangeLog b/sci-biology/snap/ChangeLog
deleted file mode 100644
index 8612cc47a..000000000
--- a/sci-biology/snap/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/snap
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*snap-20131129 (30 Mar 2015)
-
- 30 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +snap-20131129.ebuild:
- sci-biology/snap: new package
diff --git a/sci-biology/snphylo/ChangeLog b/sci-biology/snphylo/ChangeLog
deleted file mode 100644
index 1d9fffcfb..000000000
--- a/sci-biology/snphylo/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/snphylo
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*snphylo-20140701 (11 May 2015)
-
- 11 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +snphylo-20140701.ebuild:
- sci-biology/snphylo: new package, needs some R packages and we have to avoid
- the interactive setup.sh step
diff --git a/sci-biology/spm/ChangeLog b/sci-biology/spm/ChangeLog
deleted file mode 100644
index fbb5c437d..000000000
--- a/sci-biology/spm/ChangeLog
+++ /dev/null
@@ -1,29 +0,0 @@
-# ChangeLog for sci-biology/spm
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 11 Mar 2015; Horea Christian <h.chr@mail.ru> spm-12.ebuild:
- installing into octave M subdirectory
-
- 10 Mar 2015; Horea Christian <h.chr@mail.ru> spm-12.ebuild:
- installing ALL the things
-
- 04 Mar 2015; Horea Christian <h.chr@mail.ru> spm-12.ebuild:
- typo
-
- 04 Mar 2015; Horea Christian <h.chr@mail.ru> spm-12.ebuild:
- fixed doins path
-
-*spm-12 (04 Mar 2015)
-
- 04 Mar 2015; Horea Christian <h.chr@mail.ru> +spm-12.ebuild,
- spm-8.ebuild:
- removed slots, added new version
-
- 17 Feb 2015; Horea Christian <h.chr@mail.ru> -spm-8.ebuild.orig,
- spm-8.ebuild:
- added quotation marks, removed ori file
-
- 17 Feb 2015; Horea Christian <h.chr@mail.ru> +metadata.xml,
- +spm-8.ebuild.orig, spm-8.ebuild:
- added metadata
diff --git a/sci-biology/sra_sdk/ChangeLog b/sci-biology/sra_sdk/ChangeLog
deleted file mode 100644
index 96de9b3dd..000000000
--- a/sci-biology/sra_sdk/ChangeLog
+++ /dev/null
@@ -1,67 +0,0 @@
-# ChangeLog for sci-biology/sra_sdk
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> sra_sdk-2.1.9.ebuild,
- sra_sdk-2.2.2a.ebuild, metadata.xml:
- Drop useless blank line
-
-*sra_sdk-2.2.2a (28 Dec 2012)
-
- 28 Dec 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +sra_sdk-2.2.2a.ebuild:
- sci-biology/sra_sdk-2.2.2a: a version bump, still requires MAKEOPTS=-j1 and
- copies softlinks to binaries and libraries as files, so everything is in 3
- physical copies
-
- 15 Mar 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.1.9.ebuild:
- added missing insinto sra_sdk-2.1.9.ebuild
-
- 15 Mar 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.1.9.ebuild:
- use EAPI=4 hoping it will handle symlinks in bin/ and lib/ directories
- properly (but it does not, bug #408199 sra_sdk-2.1.9.ebuild
-
-*sra_sdk-2.1.6 (17 Feb 2012)
-
- 17 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +sra_sdk-2.1.6.ebuild, sra_sdk-2.1.9.ebuild:
- sci-biology/sra_sdk: updated ebuild for 2.1.6 and 2.1.9: they both
- compile/install but possibly install layout is still broken, leading to non-
- functional sff-dump
-
- 06 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.1.9.ebuild:
- preserve libs written directly into at the end of src_compile() and install
- them later on sra_sdk-2.1.9.ebuild
-
- 06 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.1.9.ebuild, +files/libs_sra_Makefile.patch,
- +files/tools_vdb-vcopy_Makefile.patch:
- two more Makefiles needed a DESTDIR patch, in conjunction with an ugly
- symlink hack in one can build the stuff; dobin does not transfer symliks so
- every binary appears installed 3 times; upstream bug
- http://jira.be-md.ncbi.nlm.nih.gov/browse/TR-10207
-
-*sra_sdk-2.1.9 (06 Feb 2012)
-
- 06 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.1.6.ebuild, +sra_sdk-2.1.9.ebuild, +files/sra_sdk-destdir.patch:
- version bump and almost correct DESTDIR patch
-
- 22 Sep 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.1.6.ebuild:
- adjust to altered source tree strcuture, add weird ncbi/ subdirs to be
- installed, more comments in the ebuild
-
-*sra_sdk-2.1.6 (22 Sep 2011)
-
- 22 Sep 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- -sra_sdk-2.0.1.ebuild, +sra_sdk-2.1.6.ebuild:
- version bump sra_sdk-2.1.6.ebuild
-
- 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- sra_sdk-2.0.1.ebuild:
- backbone of a new package, should probably use a lot of stuff from
- ncbi-tools++ ebuild
diff --git a/sci-biology/ssaha2-bin/ChangeLog b/sci-biology/ssaha2-bin/ChangeLog
deleted file mode 100644
index a2f05d5e6..000000000
--- a/sci-biology/ssaha2-bin/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/ssaha2-bin
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -ssaha2-bin-2.5.3.ebuild,
- +ssaha2-bin-2.5.5.ebuild, metadata.xml:
- Version Bump; restrict license; add QA_PREBUILT for binaries
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> ssaha2-bin-2.5.3.ebuild:
- Cleaned ebuild and fixed LICENSE
-
diff --git a/sci-biology/stacks/ChangeLog b/sci-biology/stacks/ChangeLog
deleted file mode 100644
index ac16a283b..000000000
--- a/sci-biology/stacks/ChangeLog
+++ /dev/null
@@ -1,19 +0,0 @@
-# ChangeLog for sci-biology/stacks
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> stacks-1.16.ebuild:
- sci-biology/stacks: commented out sys-cluster/openmpi DEPENDency
-
- 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> stacks-1.16.ebuild:
- sci-biology/stacks: SRC_URI cleanup
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> stacks-1.16.ebuild:
- clean up
-
-*stacks-1.16 (28 Mar 2014)
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +stacks-1.16.ebuild:
- sci-biology/stacks: skeleton for a new package; needs webapp team help, *some*
- Makefile's need proper DESTDIR support
diff --git a/sci-biology/staden/ChangeLog b/sci-biology/staden/ChangeLog
deleted file mode 100644
index 018eb7dd3..000000000
--- a/sci-biology/staden/ChangeLog
+++ /dev/null
@@ -1,53 +0,0 @@
-# ChangeLog for sci-biology/staden
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 07 Aug 2015; Justin Lecher <jlec@gentoo.org> staden-2.0.0_beta9.ebuild,
- staden-9999.ebuild:
- sci-biology/staden: Fix SLOT operators, bug #556946
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- staden-2.0.0_beta9.ebuild, staden-9999.ebuild:
- sci-biology/staden: added SLOT operator
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- staden-2.0.0_beta9.ebuild, staden-9999.ebuild:
- added PYTHON_USEDEP
-
- 24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> staden-9999.ebuild:
- sci-biology/staden: fix ESVN_REPO_URI to include trailing 'src/' so that we do
- not have to change ''. Thanks to Justin Lercher for the patch.
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> staden-2.0.0_beta9.ebuild,
- staden-9999.ebuild, metadata.xml:
- Punt base.eclass; transfer changes to live ebuild
-
-*staden-2.0.0_beta9 (26 Nov 2012)
-
- 26 Nov 2012; Justin Lecher <jlec@gentoo.org> -staden-2.0.0_beta8.ebuild,
- +staden-2.0.0_beta9.ebuild, +files/staden-2.0.0_beta9-ldflags.patch,
- +files/staden-2.0.0_beta9-libpng-1.5.patch,
- +files/staden-2.0.0_beta9-zlib.patch, -files/rpath.patch:
- Version Bump, move to sane portage like building
-
- 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> staden-9999.ebuild:
- fix determination of svn-based checkout number required for building
- staden-9999.ebuild
-
- 08 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- staden-2.0.0_beta8.ebuild, staden-9999.ebuild:
- Documented that we have to install somehow
- /usr/share/doc/staden/manual/gap4.index which is looked up when user accesses
- built-in help menu item
-
- 23 Jun 2011; Justin Lecher <jlec@gentoo.org> staden-2.0.0_beta8.ebuild,
- staden-9999.ebuild:
- Streamlined fortran-2 eclass usage
-
- 23 Jun 2011; Justin Lecher <jlec@gentoo.org> staden-2.0.0_beta8.ebuild,
- staden-9999.ebuild:
- Streamlined fortran-2 eclass usage
-
- 21 Jun 2011; Justin Lecher <jlec@gentoo.org> staden-2.0.0_beta8.ebuild,
- staden-9999.ebuild:
- Added fortran-2.eclass support
diff --git a/sci-biology/subread/ChangeLog b/sci-biology/subread/ChangeLog
deleted file mode 100644
index 382882cf7..000000000
--- a/sci-biology/subread/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/subread
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 29 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- subread-1.4.6.ebuild:
- also install GTF files; added zlib dependency
-
-*subread-1.4.6 (29 Jan 2015)
-
- 29 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +subread-1.4.6.ebuild:
- sci-biology/subread: new package
diff --git a/sci-biology/swissknife/ChangeLog b/sci-biology/swissknife/ChangeLog
deleted file mode 100644
index 677387353..000000000
--- a/sci-biology/swissknife/ChangeLog
+++ /dev/null
@@ -1,11 +0,0 @@
-# ChangeLog for sci-biology/swissknife
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Jun 2015; Justin Lecher <jlec@gentoo.org> swissknife-1.70.ebuild:
- sci-biology/swissknife: Fix dependency problems due to recent mask of perl-
- core packages
-
- 24 Sep 2014; Justin Lecher <jlec@gentoo.org> -swissknife-1.67.ebuild,
- +swissknife-1.70.ebuild, metadata.xml:
- Version Bump; Bump to EAPI=5
diff --git a/sci-biology/symap/ChangeLog b/sci-biology/symap/ChangeLog
deleted file mode 100644
index c3d9c13a1..000000000
--- a/sci-biology/symap/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/symap
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 06 Jan 2014; Justin Lecher <jlec@gentoo.org> symap-4.0.ebuild, +metadata.xml:
- Fix wrong license
-
-*symap-4.0 (29 Aug 2013)
-
- 29 Aug 2013; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +symap-4.0.ebuild:
- Not yet working.
-
diff --git a/sci-biology/tablet-bin/ChangeLog b/sci-biology/tablet-bin/ChangeLog
deleted file mode 100644
index e3f12de60..000000000
--- a/sci-biology/tablet-bin/ChangeLog
+++ /dev/null
@@ -1,56 +0,0 @@
-# ChangeLog for sci-biology/tablet-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*tablet-bin-1.14.10.21 (15 Mar 2015)
-
- 15 Mar 2015; Ted Tanberry <ted.tanberry@gmail.com>
- +tablet-bin-1.14.10.21.ebuild,
- -tablet-bin-1.13.12.17.ebuild, -tablet-bin-1.14.04.10.ebuild:
- Version bump, update SRC_URI, remove dead ebuilds
-
- 16 Sep 2014; Christoph Junghans <ottxor@gentoo.org>
- tablet-bin-1.14.04.10.ebuild:
- clean up
-
-*tablet-bin-1.14.04.10 (02 Jul 2014)
-
- 02 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +tablet-bin-1.14.04.10.ebuild:
- sci-biology/tablet-bin: version bump; updated the license
-
-*tablet-bin-1.13.12.17 (20 Jan 2014)
-
- 20 Jan 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +tablet-bin-1.13.12.17.ebuild, -tablet-bin-1.13.05.17.ebuild:
- Version bump
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> tablet-bin-1.13.05.17.ebuild:
- Version Bump; Bump to EAPI5 and python-r1.eclass; drop addpredict
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> -tablet-bin-1.11.05.03.ebuild,
- -tablet-bin-1.11.11.01.ebuild, +tablet-bin-1.13.05.17.ebuild, metadata.xml:
- Version Bump; Bump to EAPI5 and python-r1.eclass
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tablet-bin-1.11.11.01.ebuild:
- adjust PATH to point to the installation place
-
- 07 Feb 2012; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tablet-bin-1.11.11.01.ebuild:
- make use of the TMPDIR variable
-
- 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tablet-bin-1.11.11.01.ebuild:
- fix sanbox violations on some systems tablet-bin-1.11.11.01.ebuild
-
- 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tablet-bin-1.11.11.01.ebuild:
- added MYPV to the ebuild to make it more easily re-usable
- tablet-bin-1.11.11.01.ebuild
-
-*tablet-bin-1.11.11.01 (09 Dec 2011)
-
- 09 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tablet-bin-1.11.05.03.ebuild, +tablet-bin-1.11.11.01.ebuild:
- ebuild cleanup, version bump
diff --git a/sci-biology/tablet/ChangeLog b/sci-biology/tablet/ChangeLog
deleted file mode 100644
index 7ae8ed4a0..000000000
--- a/sci-biology/tablet/ChangeLog
+++ /dev/null
@@ -1,28 +0,0 @@
-# ChangeLog for sci-biology/tablet
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> -tablet-1.13.12.17.ebuild,
- tablet-9999.ebuild:
- sci-biology/tablet: fix SLOT operators and dependencies
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> tablet-9999.ebuild:
- sci-biology/tablet: note the compilation from source is not coded into ebuild
- yet
-
-*tablet-1.14.04.10 (02 Jul 2014)
-
- 02 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +tablet-1.14.04.10.ebuild, -Manifest, tablet-1.13.12.17.ebuild,
- tablet-9999.ebuild:
- sci-biology/tablet: cleaned up the ebuilds, they compile and install but the
- bundled samtools-*.jar is not found
-
-*tablet-1.13.12.17 (28 Mar 2014)
-*tablet-9999 (28 Mar 2014)
-
- 28 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/response.varfile, +metadata.xml, +tablet-1.13.12.17.ebuild,
- +tablet-9999.ebuild:
- sci-biology/tablet: skeleton for a new package eventually to replace current
- tablet-bin package
diff --git a/sci-biology/tagdust/ChangeLog b/sci-biology/tagdust/ChangeLog
deleted file mode 100644
index c983e5a9f..000000000
--- a/sci-biology/tagdust/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/tagdust
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*tagdust-20101028 (02 Feb 2015)
-
- 02 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +tagdust-20101028.ebuild:
- sci-biology/tagdust: new package
diff --git a/sci-biology/tclust/ChangeLog b/sci-biology/tclust/ChangeLog
deleted file mode 100644
index edc5c8c65..000000000
--- a/sci-biology/tclust/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/tclust
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*tclust-110625 (25 Jun 2011)
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> -tclust-0.1.ebuild,
- +tclust-110625.ebuild, +files/tclust-110625-build.patch:
- Cleaned ebuild
-
diff --git a/sci-biology/tgicl/ChangeLog b/sci-biology/tgicl/ChangeLog
deleted file mode 100644
index 53942e764..000000000
--- a/sci-biology/tgicl/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/tgicl
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 15 Jun 2015; Justin Lecher <jlec@gentoo.org> tgicl-2.1.ebuild:
- sci-biology/tgicl: Fix dependency problems due to recent mask of perl-core
- packages
-
- 24 Sep 2014; Justin Lecher <jlec@gentoo.org> tgicl-2.1.ebuild, metadata.xml:
- Bump to EAPI=5
diff --git a/sci-biology/tigr-foundation-libs/ChangeLog b/sci-biology/tigr-foundation-libs/ChangeLog
deleted file mode 100644
index 43c770108..000000000
--- a/sci-biology/tigr-foundation-libs/ChangeLog
+++ /dev/null
@@ -1,8 +0,0 @@
-# ChangeLog for sci-biology/tigr-foundation-libs
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 24 Jun 2011; Justin Lecher <jlec@gentoo.org>
- tigr-foundation-libs-2.0-r1.ebuild:
- Some ebuild cleaning
-
diff --git a/sci-biology/tmhmm/ChangeLog b/sci-biology/tmhmm/ChangeLog
deleted file mode 100644
index ad347f1dc..000000000
--- a/sci-biology/tmhmm/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/tmhmm
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 26 Apr 2015; Marius Brehler <marbre@linux.sungazer.de> tmhmm-2.0c.ebuild:
- Bump to EAPI=5 and cleanup
-
- 27 Jun 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
- tmhmm-2.0c.ebuild, -tmhmm:
- QA fixes
-
- 21 Aug 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, ebuild written by me
diff --git a/sci-biology/tophat/ChangeLog b/sci-biology/tophat/ChangeLog
deleted file mode 100644
index d382557db..000000000
--- a/sci-biology/tophat/ChangeLog
+++ /dev/null
@@ -1,89 +0,0 @@
-# ChangeLog for sci-biology/tophat
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*tophat-2.1.0 (14 Aug 2015)
-
- 14 Aug 2015; Michael Schubert <mschu.dev@gmail.com> +tophat-2.1.0.ebuild:
- sci-biology/tophat: tophat-2.1.0 version bump
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tophat-2.0.12.ebuild, tophat-2.0.13.ebuild, tophat-2.0.14.ebuild:
- added PYTHON_USEDEP
-
- 28 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tophat-2.0.12.ebuild, tophat-2.0.13.ebuild, tophat-2.0.14.ebuild:
- sci-biology/tophat: recorded depependencies; dropped KEYWORDS until we have
- slotted samtools (or multiple static binaries with version appended to
- filename), link tophat_reporter against -lsam-0.1.18 and similarly adjust
- tophat_reporter
-
- 28 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- tophat-2.0.14.ebuild:
- sci-biology/tophat: try to introduce all-recursive target to make upstream
- 'make all' call happy
-
- 17 Oct 2014; Sergey Popov <pinkbyte@gentoo.org> tophat-1.0.12.ebuild:
- Non-maintainer commit: fix building, approved by Justin Lecher
-
-*tophat-2.0.9 (06 Mar 2014)
-
- 06 Mar 2014; Justin Lecher <jlec@gentoo.org> +tophat-2.0.9.ebuild,
- +files/tophat-2.0.9-flags.patch:
- Version Bump, #502532; thanks José María Fernández González for the new
- ebuild
-
-*tophat-2.0.8 (13 Mar 2013)
-
- 13 Mar 2013; Justin Lecher <jlec@gentoo.org> +tophat-2.0.8.ebuild,
- +files/tophat-2.0.8-flags.patch:
- Version Bump; unbundle sci-biology/seqan
-
- 12 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
- Drop Andrey as maintainer so that bugs get assigned to sci-biology directly
-
-*tophat-2.0.2 (19 Jul 2012)
-
- 19 Jul 2012; Justin Lecher <jlec@gentoo.org> tophat-2.0.0.ebuild,
- +tophat-2.0.2.ebuild, +files/tophat-2.0.2-flags.patch, metadata.xml:
- Version Bump; do parallel builds; handle debug build
-
- 25 Apr 2012; Justin Lecher <jlec@gentoo.org> tophat-1.0.12.ebuild,
- tophat-1.4.1.ebuild, tophat-2.0.0.ebuild:
- Drop unnessecary die
-
-*tophat-2.0.0 (15 Apr 2012)
-
- 15 Apr 2012; Andrey Kislyuk <weaver@gentoo.org> -tophat-1.3.3.ebuild,
- +tophat-2.0.0.ebuild:
- version bump
-
-*tophat-1.4.1 (04 Feb 2012)
-*tophat-1.3.3 (04 Feb 2012)
-
- 04 Feb 2012; Andrey Kislyuk <weaver@gentoo.org> -tophat-1.3.2.ebuild,
- +tophat-1.3.3.ebuild, +tophat-1.4.1.ebuild:
- version bump
-
- 04 Feb 2012; Andrey Kislyuk <weaver@gentoo.org> tophat-1.3.2.ebuild:
- filter as-needed
-
-*tophat-1.3.2 (26 Sep 2011)
-
- 26 Sep 2011; Andrey Kislyuk <weaver@gentoo.org> +tophat-1.3.2.ebuild:
- Version bump
-
- 05 Apr 2010; Pawel Hajdan jr <phajdan.jr@gentoo.org> tophat-1.0.12.ebuild:
- x86 stable wrt bug #311829
-
- 29 Mar 2010; Pacho Ramos <pacho@gentoo.org> tophat-1.0.12.ebuild:
- amd64 stable, bug 311829
-
- 07 Dec 2009; Andrey Kislyuk <weaver@gentoo.org> tophat-1.0.12.ebuild:
- Fix x86 compile issue. Thanks to Fabian Groffen.
-
-*tophat-1.0.12 (07 Dec 2009)
-
- 07 Dec 2009; Andrey Kislyuk <weaver@gentoo.org> +metadata.xml,
- +tophat-1.0.12.ebuild:
- Import from Science overlay and version bump. Thanks to Philippe Veber.
diff --git a/sci-biology/trans-abyss/ChangeLog b/sci-biology/trans-abyss/ChangeLog
deleted file mode 100644
index 887eca9c2..000000000
--- a/sci-biology/trans-abyss/ChangeLog
+++ /dev/null
@@ -1,13 +0,0 @@
-# ChangeLog for sci-biology/trans-abyss
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> trans-abyss-1.4.8.ebuild:
- Soma polishing
-
-*trans-abyss-1.4.8 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +trans-abyss-1.4.8.ebuild, +metadata.xml:
- initial ebuild
-
diff --git a/sci-biology/trf/ChangeLog b/sci-biology/trf/ChangeLog
deleted file mode 100644
index 86855a635..000000000
--- a/sci-biology/trf/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/trf
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*trf-4.07b (22 Apr 2014)
-
- 22 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +trf-4.07b.ebuild:
- sci-biology/trf-4.07b: version bump; install some HTML helpfiles as well
diff --git a/sci-biology/trim_galore/ChangeLog b/sci-biology/trim_galore/ChangeLog
deleted file mode 100644
index e0395c1e6..000000000
--- a/sci-biology/trim_galore/ChangeLog
+++ /dev/null
@@ -1,23 +0,0 @@
-# ChangeLog for sci-biology/trim_galore
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*trim_galore-0.4.0 (30 May 2015)
-
- 30 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +trim_galore-0.4.0.ebuild, -trim_galore-0.3.7.ebuild:
- sci-biology/trim_galore: version bump; ajusted S variable to match current
- upstream's packaging habit; still needs fastqc package to be finished
-
-*trim_galore-0.3.7 (24 Feb 2015)
-
- 24 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +trim_galore-0.3.7.ebuild, -trim_galore-0.3.3.ebuild:
- version bump; installs the simple perl script and PDF doc files
-
-*trim_galore-0.3.3 (23 Mar 2014)
-
- 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +trim_galore-0.3.3.ebuild:
- sci-biology/trim_galore: a skeleton for a new package, needs sci-
- biology/fastqc to move ahead
diff --git a/sci-biology/trimmomatic/ChangeLog b/sci-biology/trimmomatic/ChangeLog
deleted file mode 100644
index 8eaa73c4d..000000000
--- a/sci-biology/trimmomatic/ChangeLog
+++ /dev/null
@@ -1,12 +0,0 @@
-# ChangeLog for sci-biology/trimmomatic
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> trimmomatic-0.32.ebuild:
- sci-biology/trimmomatic: fix SLOT operators
-
-*trimmomatic-0.32 (22 Jan 2015)
-
- 22 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +trimmomatic-0.32.ebuild:
- sci-biology/trimmomatic: new package
diff --git a/sci-biology/trinityrnaseq/ChangeLog b/sci-biology/trinityrnaseq/ChangeLog
deleted file mode 100644
index ed29a10c4..000000000
--- a/sci-biology/trinityrnaseq/ChangeLog
+++ /dev/null
@@ -1,53 +0,0 @@
-# ChangeLog for sci-biology/trinityrnaseq
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jan 2016; Marius Brehler <marbre@linux.sungazer.de>
- trinityrnaseq-2.0.6.ebuild, trinityrnaseq-2.1.1.ebuild:
- sci-biology/trinityrnaseq: Add missing die
-
- 05 Jan 2016; Marius Brehler <marbre@linux.sungazer.de>
- trinityrnaseq-2.0.6.ebuild:
- sci-biology/trinityrnaseq: Drop KEYWORDS (depends on masked package)
-
- 31 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- trinityrnaseq-2.0.6.ebuild, trinityrnaseq-2.1.1.ebuild:
- sci-biology/trinityrnaseq: do not install bundled GAL but DEPEND on it via
- external package as sci-biology/GAL
-
-*trinityrnaseq-2.1.1 (20 Nov 2015)
-
- 20 Nov 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/disable_some_plugins.patch, +trinityrnaseq-2.1.1.ebuild:
- sci-biology/trinityrnaseq: version bump but dropping KEYWORDS because we
- relocate *.pm file into vendor_perl and all 'use blah' calls to trinity-
- provided perl modules need to be changed to 'use trinityrnaseq::blah', or
- PERL5INC modified?
-
- 06 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
- sci-biology/trinityrnaseq: Add github to remote-id in metadata.xml
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- trinityrnaseq-2.0.6.ebuild:
- sci-biology/trinityrnaseq: added missing quotes
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- trinityrnaseq-2.0.6.ebuild:
- sci-biology/trinityrnaseq: added a note and removed broken symlink upon
- installation
-
-*trinityrnaseq-2.0.6 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +trinityrnaseq-2.0.6.ebuild, -files/r3590_chmod.patch, -files/sort.patch,
- -trinityrnaseq-20140413.ebuild:
- sci-biology/trinityrnaseq: version bump; dropped patches because target file
- is gone; ideally should depend on <sci-biology/samtools-1.1 but lets see what
- are the real requirements
-
-*trinityrnaseq-20140413 (30 Apr 2015)
-
- 30 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/r3590_chmod.patch, +files/sort.patch, +metadata.xml,
- +trinityrnaseq-20140413.ebuild:
- sci-biology/trinityrnaseq: new package (with last release on sourceforge)
diff --git a/sci-biology/trowel/ChangeLog b/sci-biology/trowel/ChangeLog
deleted file mode 100644
index 6e5b88c44..000000000
--- a/sci-biology/trowel/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/trowel
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*trowel-0.1.4.1 (07 Jan 2015)
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +trowel-0.1.4.1.ebuild:
- new, working ebuild
diff --git a/sci-biology/twinscan/ChangeLog b/sci-biology/twinscan/ChangeLog
deleted file mode 100644
index da9a3364c..000000000
--- a/sci-biology/twinscan/ChangeLog
+++ /dev/null
@@ -1,24 +0,0 @@
-# ChangeLog for sci-biology/twinscan
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*twinscan-4.1.2-r1 (02 May 2015)
-
- 02 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +twinscan-4.1.2-r1.ebuild, -twinscan-4.1.2.ebuild:
- sci-biology/twinscan: lots of tweaks to install process, install perl modules,
- more perl scripts, noted optional external dependencies
-
- 16 Jun 2013; Justin Lecher <jlec@gentoo.org> twinscan-4.1.2.ebuild,
- metadata.xml:
- Bump to EAPI=5 and fix license
-
- 07 Mar 2011; Justin Lecher <jlec@gentoo.org> twinscan-4.1.2.ebuild:
- Correct Slots for gtk 3 introduction to tree
-
- 27 Jun 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
- twinscan-4.1.2.ebuild:
- QA fixes
-
- 17 Apr 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
- New package, bug 154939, ebuild written by me
diff --git a/sci-biology/ugene/ChangeLog b/sci-biology/ugene/ChangeLog
deleted file mode 100644
index f5bc37cea..000000000
--- a/sci-biology/ugene/ChangeLog
+++ /dev/null
@@ -1,32 +0,0 @@
-# ChangeLog for sci-biology/ugene
-# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 05 Jan 2016; Alexey Shvetsov <alexxy@gentoo.org> ugene-1.20.0.ebuild:
- sci-biology/ugene: Fix install target
-
- 05 Jan 2016; Alexey Shvetsov <alexxy@gentoo.org> ugene-1.20.0.ebuild:
- sci-biology/ugene: Make it actualy compile
-
-*ugene-1.20.0 (04 Jan 2016)
-
- 04 Jan 2016; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ugene-1.20.0.ebuild:
- sci-biology/ugene: version bump, maybe the >=Qt5-5.2.1 should be specified
- more properly?
-
-*ugene-1.16.1 (09 May 2015)
-
- 09 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +ugene-1.16.1.ebuild:
- sci-biology/ugene: version bump
-
- 01 Feb 2015; Marius Brehler <marbre@linux.sungazer.de>
- ugene-1.13.3.ebuild.ebuild:
- Convert sse2 to cpu_flags_x86_sse2
-
-*ugene-1.13.3 (01 Jun 2014)
-
- 01 Jun 2014; Alexey Shvetsov <alexxy@gentoo.org> +metadata.xml,
- +ugene-1.13.3.ebuild:
- Add new ebuild
diff --git a/sci-biology/vague-bin/ChangeLog b/sci-biology/vague-bin/ChangeLog
deleted file mode 100644
index 471563796..000000000
--- a/sci-biology/vague-bin/ChangeLog
+++ /dev/null
@@ -1,15 +0,0 @@
-# ChangeLog for sci-biology/vague-bin
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 18 Feb 2015; Justin Lecher <jlec@gentoo.org> vague-bin-1.0.5.ebuild:
- sci-biology/vague-bin: fix SLOT operators
-
- 09 Feb 2015; Marius Brehler <marbre@linux.sungazer.de> epga-9999.ebuild:
- Switch from git-2 to git-r3; Cleanup; Fix KEYWORDS
-
-*vague-bin-1.0.5 (08 Jan 2015)
-
- 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +files/vague.patch,
- +metadata.xml, +vague-bin-1.0.5.ebuild:
- sci-biology/vague-bin: new java binary package
diff --git a/sci-biology/velvetk/ChangeLog b/sci-biology/velvetk/ChangeLog
deleted file mode 100644
index d4838e761..000000000
--- a/sci-biology/velvetk/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/velvetk
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> velvetk-20120606.ebuild:
- Simplify ebuild
-
- 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- velvetk-20120606.ebuild:
- added perl to dependencies
-
-*velvetk-20120606 (15 Apr 2014)
-
- 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +velvetk-20120606.ebuild:
- sci-biology/velvetk: new package
diff --git a/sci-biology/wcd/ChangeLog b/sci-biology/wcd/ChangeLog
deleted file mode 100644
index 7336100b3..000000000
--- a/sci-biology/wcd/ChangeLog
+++ /dev/null
@@ -1,36 +0,0 @@
-# ChangeLog for sci-biology/wcd
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> wcd-0.6.3.ebuild:
- sci-biology/wcd: add note on supported MPI implementations
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> wcd-0.6.3.ebuild:
- sci-biology/wcd: also install some documentation, albeit probably old
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +files/wcd-0.6.3-impl-decl.patch, +files/wcd-0.6.3-ldflags.patch,
- -files/wcd-0.6.0-impl-decl.patch, -files/wcd-0.6.0-ldflags.patch:
- sci-biology/wcd: renamed patch files
-
- 02 Dec 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> wcd-0.6.3.ebuild:
- sci-biology/wcd: fix S
-
-*wcd-0.6.3 (09 Jan 2015)
-
- 09 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +wcd-0.6.3.ebuild,
- -wcd-0.6.0.ebuild:
- sci-biology/wcd: version bump, clarify package description, add comments about
- addons
-
- 03 Mar 2013; Justin Lecher <jlec@gentoo.org> wcd-0.6.0.ebuild,
- +files/wcd-0.6.0-impl-decl.patch, +files/wcd-0.6.0-ldflags.patch,
- metadata.xml:
- Add missing multilib.eclass; move to EAPI=5 and autotools-utils.eclass;
- simplify ebuild syntax; fix for ld.gold; fix implicid declarations
-
-*wcd-0.6.0 (25 Jun 2011)
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> -wcd-0.6.0_beta.ebuild,
- +wcd-0.6.0.ebuild:
- Cleaned ebuild
diff --git a/sci-biology/weblogo/ChangeLog b/sci-biology/weblogo/ChangeLog
deleted file mode 100644
index ec5a14c83..000000000
--- a/sci-biology/weblogo/ChangeLog
+++ /dev/null
@@ -1,9 +0,0 @@
-# ChangeLog for sci-biology/weblogo
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*weblogo-2.8.2 (08 Sep 2015)
-
- 08 Sep 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +weblogo-2.8.2.ebuild:
- sci-biology/weblogo: new perl utility
diff --git a/sci-biology/wgs-assembler/ChangeLog b/sci-biology/wgs-assembler/ChangeLog
deleted file mode 100644
index 415bd7822..000000000
--- a/sci-biology/wgs-assembler/ChangeLog
+++ /dev/null
@@ -1,19 +0,0 @@
-# ChangeLog for sci-biology/wgs-assembler
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*wgs-assembler-8.3_rc2 (25 May 2015)
-
- 25 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
- +wgs-assembler-8.3_rc2.ebuild, -wgs-assembler-8.3_rc1.ebuild:
- version bump
-
-*wgs-assembler-8.2 (18 Apr 2015)
-*wgs-assembler-8.3_rc1 (18 Apr 2015)
-
- 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +wgs-assembler-8.2.ebuild, +wgs-assembler-8.3_rc1.ebuild:
- sci-biology/wgs-assembler: version bumps; did not check if the LDFLAGS part of
- the v7.0 patch should be carried over; CFLAGS seems are already handled
- properly by current code; 8.3rc1 dies at: install: cannot stat 'Linux-
- amd64/bin/TIGR': No such file or directory
diff --git a/sci-biology/wise/ChangeLog b/sci-biology/wise/ChangeLog
deleted file mode 100644
index 36a9faaa4..000000000
--- a/sci-biology/wise/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-biology/wise
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
-*wise-2.4.1 (09 May 2015)
-
- 09 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
- +wise-2.4.1.ebuild:
- sci-biology/wise: version bump, new HOMEPAGE, SRC_URI, does not compile, the
- former patches need to be updated as well
diff --git a/sci-biology/zmsort/ChangeLog b/sci-biology/zmsort/ChangeLog
deleted file mode 100644
index b8546a39b..000000000
--- a/sci-biology/zmsort/ChangeLog
+++ /dev/null
@@ -1,14 +0,0 @@
-# ChangeLog for sci-biology/zmsort
-# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Id$
-
- 10 Jan 2015; Justin Lecher <jlec@gentoo.org> zmsort-110625.ebuild,
- metadata.xml:
- Bump EAPI
-
-*zmsort-110625 (25 Jun 2011)
-
- 25 Jun 2011; Justin Lecher <jlec@gentoo.org> -zmsort-0.1.ebuild,
- +zmsort-110625.ebuild, +files/zmsort-110625-build.patch:
- Cleaned ebuild
-