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nixpkgs/pkgs/applications/science/biology
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Frederik Rietdijk c456a2512f Merge master into staging-next
2021-02-26 10:25:13 +01:00
..
ants
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
aragorn
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
bayescan
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
bcftools
treewide: add targetPrefix to hardcoded references to CC=cc
2021-02-20 01:01:46 +07:00
bedtools
bedtools: 2.29.2 -> 2.30.0
2021-01-25 13:06:22 +11:00
bftools
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
blast
blast: 2.10.0 -> 2.11.0
2021-02-06 19:20:56 +00:00
bowtie
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
bowtie2
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
bppsuite
…
bwa
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
cd-hit
cd-hit: remove non-existent package
2021-01-19 01:16:25 -08:00
clustal-omega
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
cmtk
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
conglomerate
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
dcm2niix
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
deeptools
…
delly
delly: 0.8.6 -> 0.8.7
2021-01-18 14:22:30 +00:00
diamond
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
ecopcr
ecopcr: use spaces for indentation
2021-01-20 10:53:10 +10:00
eggnog-mapper
treewide: makeWrapper buildInputs to nativeBuildInputs
2021-02-19 20:09:16 +07:00
emboss
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
est-sfs
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
exonerate
treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix
2021-01-19 01:16:25 -08:00
EZminc
treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix
2021-01-19 01:16:25 -08:00
fastp
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
freebayes
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
hisat2
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
hmmer
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
igv
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
inormalize
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
itsx
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
iv
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
kallisto
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
kent
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
kssd
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
last
last: 1178 -> 1179
2021-02-21 21:24:17 +00:00
lumpy
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
macse
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
manta
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
megahit
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
messer-slim
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
migrate
treewide: fix double quoted strings in meta.description
2021-01-24 19:56:59 +07:00
minc-tools
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
minc-widgets
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
minia
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
minimap2
treewide: editorconfig fixes
2021-01-20 09:11:11 +10:00
mni_autoreg
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
mosdepth
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
mrbayes
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
mrtrix
…
muscle
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
N3
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
ncbi-tools
treewide: fix double quoted strings in meta.description
2021-01-24 19:56:59 +07:00
neuron
mpi: use mpi attribute consistently as the default MPI implementations
2021-01-23 12:15:13 +01:00
niftyreg
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
niftyseg
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
obitools
treewide: remove stdenv where not needed
2021-01-25 18:31:47 +01:00
octopus
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
paml
treewide: fix double quoted strings in meta.description
2021-01-24 19:56:59 +07:00
picard-tools
picard-tools: 2.24.2 -> 2.25.0
2021-02-11 21:10:44 +00:00
platypus
treewide: makeWrapper buildInputs to nativeBuildInputs
2021-02-19 20:09:16 +07:00
plink-ng
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
poretools
treewide: remove stdenv where not needed
2021-01-25 18:31:47 +01:00
prodigal
treewide: add targetPrefix to hardcoded references to CC=cc
2021-02-20 01:01:46 +07:00
quast
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
raxml
mpi: use mpi attribute consistently as the default MPI implementations
2021-01-23 12:15:13 +01:00
sambamba
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
samblaster
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
samtools
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
seaview
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
snpeff
treewide: makeWrapper buildInputs to nativeBuildInputs
2021-02-19 20:09:16 +07:00
somatic-sniper
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
sortmerna
sortmerna: mark broken on darwin
2021-01-26 12:55:33 -05:00
spades
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
stacks
treewide: stdenv.lib -> lib
2021-01-16 17:58:11 +07:00
star
star: 2.7.7a -> 2.7.8a
2021-02-23 10:38:00 +00:00
strelka
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
sumatools
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
svaba
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
tebreak
treewide: remove stdenv where not needed
2021-01-25 18:31:47 +01:00
trimal
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
truvari
…
varscan
treewide: makeWrapper buildInputs to nativeBuildInputs
2021-02-19 20:09:16 +07:00
vcftools
treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix
2021-01-19 01:16:25 -08:00
whisper
treewide: with stdenv.lib; in meta -> with lib;
2021-01-11 10:38:22 +01:00
xenomapper
…