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nixpkgs/pkgs/applications/science/biology
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Vladimír Čunát 2e6bf42a22
Merge branch 'master' into staging-next 
There ver very many conflicts, basically all due to
name -> pname+version.  Fortunately, almost everything was auto-resolved
by kdiff3, and for now I just fixed up a couple evaluation problems,
as verified by the tarball job.  There might be some fallback to these
conflicts, but I believe it should be minimal.

Hydra nixpkgs: ?compare=1538299
2019-08-24 08:55:37 +02:00
..
ants treewide: remove BUILD_TESTING flag 2019-03-11 10:11:28 -04:00
aragorn aragorn: init at 1.2.38 (#58354) 2019-04-29 07:18:03 -04:00
bcftools treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
bedtools treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
bftools treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
bowtie2 treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
bwa treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
cd-hit cd-hit: init at 4.8.1 2019-06-13 14:35:13 +02:00
clustal-omega treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
cmtk treewide: make -Wno-error flags clang-only 2019-04-29 21:34:24 -04:00
conglomerate lib.makePerlPath -> perlPackages.makePerlPath 2018-12-15 03:50:31 +00:00
dcm2niix treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
diamond
ecopcr
eggnog-mapper eggnog-mapper: fix patch URL and hash 2019-05-13 16:00:07 +02:00
emboss
est-sfs est-sfs: init at 2.03 2019-07-16 13:55:59 +02:00
exonerate exonerate: init at 2.4.0 2019-04-19 14:58:57 +02:00
EZminc
freebayes treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
hisat2 treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
hmmer treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
igv treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
inormalize lib.makePerlPath -> perlPackages.makePerlPath 2018-12-15 03:50:31 +00:00
itsx treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
iv iv: only use patchelf on linux 2019-06-05 23:42:58 -04:00
kallisto treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
megahit megahit: init at 1.1.4 2019-03-31 05:56:14 +02:00
messer-slim treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
migrate migrate: init at 3.7.2 2019-04-05 09:01:36 +02:00
minc-tools lib.makePerlPath -> perlPackages.makePerlPath 2018-12-15 03:50:31 +00:00
minc-widgets lib.makePerlPath -> perlPackages.makePerlPath 2018-12-15 03:50:31 +00:00
minimap2 treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
mni_autoreg treewide: remove BUILD_TESTING flag 2019-03-11 10:11:28 -04:00
mosdepth treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
mrbayes
muscle
N3 lib.makePerlPath -> perlPackages.makePerlPath 2018-12-15 03:50:31 +00:00
ncbi-tools
neuron treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
niftyreg treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
niftyseg treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
octopus treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
paml treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
picard-tools Merge branch 'master' into staging-next 2019-08-24 08:55:37 +02:00
platypus treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
plink
plink-ng treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
poretools treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
prodigal Prodigal: init at 2.6.3 2019-04-19 08:38:14 +02:00
raxml treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
samtools treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
seaview treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
snpeff treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
somatic-sniper treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
stacks stacks: 2.4 -> 2.41 2019-07-17 09:34:10 +02:00
star star: 2.7.0f -> 2.7.1a (#62577) 2019-06-06 18:10:34 +02:00
strelka treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
sumatools treewide: remove unused variables (#63177) 2019-06-16 19:59:05 +00:00
varscan treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00
vcftools treewide: name -> pname (easy cases) (#66585) 2019-08-15 13:41:18 +01:00