Ben Darwin 9a2cd20478 mrtrix: init at 3.0_RC3_latest ... This package consists mostly of command-line tools, but there are also two qt5-based image viewers (`mrview` and `shview`). I have provided an option `withGui = true` to allow users to disable these viewers. They work on NixOS but unlikely to work out-of-the box on non-NixOS Linux (see #62169), but I've refrained from asserting that they shouldn't be built since a user might want to fiddle with runtime GL stuff. Some programs rely on FSL and/or ANTs backends; I have somewhat heavy-handedly wrapped all binaries to point to ANTs, while FSL is not available in Nix at the moment and has a non-commercial license so would be convenient to disable by default for Hydra builds.		2020-02-16 22:25:25 -05:00
..
ants	ants: use itk 4.x	2019-09-13 11:54:21 +02:00
aragorn
bayescan	bayescan: init at 2.1 (#68191)	2020-01-09 12:38:53 -05:00
bcftools	bcftools: 1.9 -> 1.10.2	2019-12-22 20:00:29 -08:00
bedtools	bedtools: 2.29.1 -> 2.29.2	2019-12-18 10:39:25 +11:00
bftools	bftools: 5.9.2 -> 6.3.0	2019-12-06 02:11:00 -08:00
blast	blast: init at 2.10.0 (#61430)	2020-01-07 20:14:18 +01:00
bowtie2
bwa
cd-hit
clustal-omega
cmtk
conglomerate
dcm2niix	dcm2niix: 1.0.20190410 -> 1.0.20190902	2019-10-22 16:31:19 -07:00
deeptools	deeptools: init at 3.3.1	2019-11-04 02:42:36 -08:00
delly	delly: 0.8.1 -> 0.8.2	2020-02-11 19:21:59 +11:00
diamond
ecopcr
eggnog-mapper	treewide: remove redundant quotes	2019-09-08 23:38:31 +00:00
emboss
est-sfs
exonerate
EZminc	EZminc: 2017-08-29 -> 2019-07-25; mark unbroken	2019-10-26 09:55:30 -07:00
freebayes	freebayes: 2017-08-23 -> 1.3.1 (2019-06-03)	2019-11-20 09:10:31 -08:00
hisat2
hmmer	hmmer: 3.2.1 -> 3.3	2019-11-27 18:40:23 -08:00
igv	maintainer: mimadrid: update github username and personal data	2019-09-14 12:15:46 +02:00
inormalize
itsx
iv
kallisto	kallisto: 0.46.0 -> 0.46.1 (#74430)	2019-11-30 21:12:54 +01:00
kssd	kssd: init at 1.0	2019-12-08 16:48:59 +01:00
last	last: 1045 -> 1047	2020-02-08 13:04:53 +00:00
macse	macse: init at 2.03	2019-09-24 08:24:07 +02:00
manta	manta: init 1.6.0	2020-01-24 02:02:19 -08:00
megahit	megahit: 1.1.4 -> 1.2.9	2019-11-02 15:53:57 +01:00
messer-slim
migrate
minc-tools	minc_tools: enable building conversion tools	2020-02-10 19:53:25 +01:00
minc-widgets
minia	minia: init at 3.2.1	2019-12-20 11:27:04 +11:00
minimap2
mni_autoreg
mosdepth
mrbayes
mrtrix	mrtrix: init at 3.0_RC3_latest	2020-02-16 22:25:25 -05:00
muscle
N3
ncbi-tools
neuron
niftyreg	niftyreg: fix build with gcc9	2019-11-03 14:43:37 +01:00
niftyseg	nifticlib and niftseg: change platform from linux to unix since these build on OSX	2019-11-14 21:25:10 -05:00
octopus
paml	paml: 4.9i -> 4.9j	2019-12-01 18:43:58 +01:00
picard-tools	picard-tools: 2.21.6 -> 2.21.8	2020-02-07 17:20:58 +00:00
platypus
plink
plink-ng
poretools	treewide: fix redirected urls	2020-01-22 11:26:22 +01:00
prodigal
raxml
samtools	samtools: 1.9 -> 1.10	2020-01-19 13:13:01 -08:00
seaview	seaview: 4.7 -> 5.0	2020-01-30 08:26:52 +00:00
snpeff
somatic-sniper
sortmerna
spades	Revert "Revert "Merge master into staging-next""	2020-02-05 19:41:25 +01:00
stacks
star	star: 2.7.2b -> 2.7.3a	2019-11-03 10:23:05 +01:00
strelka	strelka: fix build w/ gcc9	2019-12-30 03:18:19 +01:00
sumatools	treewide: replace make/build/configure/patchFlags with nix lists	2019-12-30 12:58:11 +01:00
svaba	svaba: init at 1.1.0	2019-12-08 14:51:05 +01:00
tebreak	tebreak: init at 1.0	2019-12-29 17:16:10 +11:00
trimal
truvari	truvari: init at 1.3.2 (#70877)	2019-10-24 17:06:42 -04:00
varscan
vcftools
xenomapper	python.pkgs wide: fix problematic urls	2020-01-10 21:02:12 -08:00