Alexis Praga cc4bd30387 perlPackages.BioBigfile: init at 1.07 ... Perl interface to manipulate BigWig and BigBeg files (for genomics) This will be used to package VEP : uttps://www.ensembl.org/info/docs/tools/vep/script/vep_download.html For that, only kent version 335 works at the moment. For this commit, 2 commits for kent are needed - e027a5d836 : packaging kent header - 2b2c6f4c28 : enabling patches in kent		2023-11-21 23:16:12 +01:00
..
angsd	angsd: pull patch pending upstream inclusion for parallel build fix	2023-08-20 08:50:53 +01:00
ants	ants: update postInstall attribute	2023-09-02 23:09:28 +02:00
aragorn	aragorn: fix format	2023-06-08 18:42:29 +09:00
astral
bamtools	bamtools: init at 2.5.2	2023-08-18 00:17:15 +09:00
bayescan
bcftools	bcftools: 1.17 -> 1.18	2023-08-01 03:38:31 +00:00
bedops	bedops: fix build on darwin	2023-04-24 22:11:47 +09:00
bedtools	bedtools: 2.31.0 -> 2.31.1	2023-11-09 06:18:08 +00:00
bftools
bioawk	bioawk: init at unstable-2017-09-11	2023-08-18 00:36:09 +09:00
blast	blast-bin: add sourceProvenance to meta	2023-10-07 10:12:24 +09:00
bowtie
bowtie2	bowtie2: enable tests	2023-10-20 17:08:20 +09:00
bppsuite	bppsuite: fix homepage	2023-06-15 12:18:11 -04:00
bwa	bwa: add runHook	2023-05-15 16:13:49 +09:00
bwa-mem2	bwa-mem2: init at version 2.2.1	2023-08-23 15:02:06 -07:00
cd-hit
clustal-omega
cmtk	cmtk: fix format	2023-07-11 17:50:47 +09:00
conglomerate
dcm2niix
deeptools	deeptools: 3.5.1 -> 3.5.4	2023-10-18 19:06:01 +02:00
delly	delly: 1.1.7 -> 1.1.8	2023-10-25 10:07:12 +00:00
diamond	diamond: 2.1.7 -> 2.1.8	2023-06-25 04:35:30 +00:00
dssp	dssp: 4.4.3 -> 4.4.4.1	2023-10-22 18:22:11 +09:00
ecopcr
eggnog-mapper
emboss
est-sfs
exonerate
EZminc
fastp	fastp: 0.23.3 -> 0.23.4	2023-06-04 03:21:21 +00:00
febio-studio
flywheel-cli
freebayes
gatk
genmap
hh-suite	hh-suite: init at 3.3.0	2023-04-19 10:32:35 +09:00
hisat2
hmmer	hmmer: add changelog to meta	2023-09-24 04:24:00 +00:00
igv	igv: 2.16.1 -> 2.16.2	2023-09-09 05:56:58 +00:00
inormalize
iqtree	iqtree: 2.2.2.6 -> 2.2.2.7	2023-08-25 12:25:13 +00:00
itsx
iv
jbrowse	jbrowse: init at 2.5.0	2023-05-12 11:24:26 -07:00
kalign	kalign: init at 3.3.5	2023-06-14 21:05:58 +09:00
kallisto	kallisto: 0.48.0 -> 0.50.0	2023-07-09 17:19:43 +00:00
kent	perlPackages.BioBigfile: init at 1.07	2023-11-21 23:16:12 +01:00
kssd	kssd: enable aarch64-linux support & tests	2023-11-03 19:34:28 +09:00
last	last: 1471 -> 1499	2023-11-01 19:08:21 +00:00
macs2	macs2: 2.2.8 -> 2.2.9.1	2023-08-11 14:45:45 -07:00
macse
mafft	mafft: 7.515 -> 7.520	2023-04-12 13:28:24 +09:00
manta
megahit
meme-suite
messer-slim
migrate
minc-tools
minc-widgets
minia
minimap2	minimap2: 2.25 -> 2.26	2023-05-03 19:38:48 +00:00
mmseqs2	mmseqs2: 14-7e284 -> 15-6f452	2023-11-01 09:19:34 +00:00
mni_autoreg
mosdepth	mosdepth: 0.3.4 -> 0.3.5	2023-09-19 00:55:31 +00:00
mrbayes
mrtrix	mrtrix: unstable-2021-11-25 -> 3.0.4	2023-09-06 12:11:38 -04:00
muscle	treewide: noop: refer to src.name or similar in sourceRoot where appropriate, part 1: trivial cases	2023-08-03 16:32:03 +00:00
N3
nest	nest-mpi: 3.5 -> 3.6	2023-09-30 18:54:13 +00:00
neuron	neuron-mpi: 8.2.2 -> 8.2.3	2023-09-23 02:33:53 +00:00
niftyreg
niftyseg
obitools
octopus	various packages: pin boost179	2023-07-22 16:54:22 +02:00
paml	paml: refactor	2023-07-14 15:08:14 +09:00
picard-tools	picard-tools: 3.0.0 -> 3.1.0	2023-08-02 22:03:03 +00:00
platypus
plink-ng
poretools	treewide: remove execute bit for non-executable *.nix files	2023-10-20 19:55:39 +02:00
prodigal
quast	treewide: change pythonForBuild to pythonOnBuildForHost	2023-11-05 17:42:12 -08:00
raxml	raxml: 8.2.12 -> 8.2.13	2023-10-16 22:16:12 +00:00
repseek
sambamba	sambamba: 1.0.0 -> 1.0.1	2023-08-25 06:20:00 +00:00
samblaster
samtools	samtools: 1.17 -> 1.18	2023-08-07 01:22:06 +00:00
seaview
seqkit	seqkit: 2.5.0 -> 2.5.1	2023-08-10 04:42:38 +00:00
seqtk	seqtk: 1.3 -> 1.4	2023-05-28 06:48:51 +00:00
snpeff
somatic-sniper
sortmerna	treewide: replace -DCMAKE_BUILD_TYPE in cmakeFlags with cmakeBuildType	2023-09-08 14:18:26 +00:00
spades
sratoolkit	treewide: remove unneeded dots and slashes in sourceRoots	2023-08-12 08:29:56 +00:00
stacks	stacks: set platforms	2023-10-01 02:26:34 +02:00
star	treewide: noop: refer to src.name or similar in sourceRoot where appropriate, part 1: trivial cases	2023-08-03 16:32:03 +00:00
strelka
subread	subread: 2.0.5 -> 2.0.6	2023-05-10 22:30:35 +10:00
sumatools
svaba
tandem-aligner	treewide: noop: refer to src.name or similar in sourceRoot where appropriate, part 1: trivial cases	2023-08-03 16:32:03 +00:00
tebreak
treemix
trf
trimal	treewide: remove execute bit for non-executable *.nix files	2023-10-20 19:55:39 +02:00
trimmomatic	trimmomatic: init at 0.39	2023-09-22 13:50:18 -03:00
truvari	truvari: 4.0.0 -> 4.1.0	2023-10-07 01:30:27 +09:00
varscan	varscan: 2.4.5 -> 2.4.6	2023-04-05 14:55:31 +00:00
vcftools	treewide: remove execute bit for non-executable *.nix files	2023-10-20 19:55:39 +02:00
veryfasttree	veryfasttree: 4.0.2 -> 4.0.3	2023-09-12 06:13:28 +00:00
whisper
xenomapper