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nixpkgs/pkgs/applications/science/biology
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Jonathan Ringer 9bb3fccb5b treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix 
continuation of #109595

pkgconfig was aliased in 2018, however, it remained in
all-packages.nix due to its wide usage. This cleans
up the remaining references to pkgs.pkgsconfig and
moves the entry to aliases.nix.

python3Packages.pkgconfig remained unchanged because
it's the canonical name of the upstream package
on pypi.
2021-01-19 01:16:25 -08:00
..
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: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
bedtools treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
bftools treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
blast treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
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 bppsuite: init at 2.4.1 2020-05-25 21:13:02 -04:00
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 deeptools: Fix tests 2020-11-25 21:36:37 +01:00
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 treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
eggnog-mapper treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
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 treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
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: Per RFC45, remove all unquoted URLs 2020-04-10 17:54:53 +01:00
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: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
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 mrtrix: 3.0.0 -> 3.0.2 2020-09-30 22:13:18 -04:00
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: Per RFC45, remove all unquoted URLs 2020-04-10 17:54:53 +01:00
neuron treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix 2021-01-19 01:16:25 -08:00
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: stdenv.lib -> lib 2021-01-16 17:58:11 +07:00
octopus treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
paml treewide: Per RFC45, remove all unquoted URLs 2020-04-10 17:54:53 +01:00
picard-tools treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
platypus treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
plink-ng treewide: stdenv.lib -> lib 2021-01-16 17:58:11 +07:00
poretools treewide: stdenv.lib -> lib 2021-01-16 17:58:11 +07:00
prodigal treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
quast treewide: stdenv.lib -> lib 2021-01-16 17:58:11 +07:00
raxml treewide: stdenv.lib -> lib 2021-01-16 17:58:11 +07:00
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: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
somatic-sniper treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
sortmerna treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix 2021-01-19 01:16:25 -08:00
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 treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
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: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
trimal treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
truvari truvari: 1.3.4 -> 2.0.2, fixing build 2020-09-20 12:25:17 +01:00
varscan treewide: with stdenv.lib; in meta -> with lib; 2021-01-11 10:38:22 +01:00
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