| Commit message (Expand) | Author | Age | Files | Lines |
|---|
| * | gnu: bless: Adjust to zlib static output.•••* gnu/packages/bioinformatics.scm (bless)[inputs]: Add ZLIB:STATIC.
[arguments]: Adjust #:make-flags accordingly.
| Marius Bakke | 2018-11-24 | 1 | -1/+2 |
| * | gnu: mosaik: Fix FTBFS from b90289dadc8ee15848ce911a2bdcd3ae8302d58c.•••* gnu/packages/bioinformatics.scm (mosaik)[inputs]: Add ZLIB:STATIC.
| Marius Bakke | 2018-11-24 | 1 | -0/+1 |
| * | gnu: pigx-scrnaseq: Use latest snakemake.•••* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace snakemake-4
with snakemake.
| Ricardo Wurmus | 2018-11-23 | 1 | -1/+1 |
| * | gnu: pigx-bsseq: Use latest snakemake.•••* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace snakemake-4
with snakemake.
| Ricardo Wurmus | 2018-11-23 | 1 | -1/+1 |
| * | gnu: pigx-chipseq: Use latest snakemake.•••* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace snakemake-4
with snakemake.
| Ricardo Wurmus | 2018-11-23 | 1 | -1/+1 |
| * | gnu: python-loompy: Remove python-typing.•••* gnu/packages/bioinformatics.scm (python-loompy)[propagated-inputs]: Remove
python-typing.
| Ricardo Wurmus | 2018-11-23 | 1 | -2/+1 |
| * | Merge branch 'master' into core-updates | Marius Bakke | 2018-11-20 | 1 | -18/+93 |
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| | * | gnu: r-ensembldb: Update to 2.6.2.•••* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.2.
| Roel Janssen | 2018-11-19 | 1 | -2/+2 |
| | * | gnu: r-msnbase: Update to 2.8.1.•••* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.1.
| Roel Janssen | 2018-11-19 | 1 | -2/+2 |
| | * | gnu: r-genomeinfodb: Update to 1.18.1.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.1.
| Roel Janssen | 2018-11-19 | 1 | -2/+2 |
| | * | gnu: Add nanopolish.•••* gnu/packages/bioinformatics.scm (nanopolish): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| pimi | 2018-11-15 | 1 | -0/+74 |
| | * | gnu: sambamba: Update to 0.6.8.•••* gnu/packages/bioinformatics.scm (sambamba): Update to 0.6.8.
| Roel Janssen | 2018-11-15 | 1 | -12/+13 |
| * | | gnu: bioinformatics: Return #t from all phases and snippets.•••* gnu/packages/bioinformatics.scm (bamtools, ribotaper, bioawk)
(codingquarry, fraggenescan, minced, pplacer, star, subread, sailfish)
(salmon): Return #t from all phases and snippets, use 'invoke' where
appropriate, and remove vestigal plumbing.
| Mark H Weaver | 2018-11-14 | 1 | -16/+31 |
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| * | gnu: Add jamm.•••* gnu/packages/bioinformatics.scm (jamm): New variable.
| Ricardo Wurmus | 2018-11-14 | 1 | -0/+79 |
| * | gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.4.•••* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene):
Update to 3.4.4.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-org-mm-eg-db: Update to 3.7.0.•••* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.7.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-org-dm-eg-db: Update to 3.7.0.•••* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.7.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-org-ce-eg-db: Update to 3.7.0.•••* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.7.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-org-hs-eg-db: Update to 3.7.0.•••* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.7.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-genomationdata: Update to 1.14.0.•••* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.14.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-go-db: Update to 3.7.0.•••* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.7.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-genomeinfodbdata: Update to 1.2.0.•••* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Update to 1.2.0.
| Ricardo Wurmus | 2018-11-13 | 1 | -2/+2 |
| * | gnu: r-s4vectors: Update to 0.20.1.•••* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.20.1.
| Ricardo Wurmus | 2018-11-11 | 1 | -2/+2 |
| * | gnu: r-ensembldb: Update to 2.6.1.•••* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.1.
| Ricardo Wurmus | 2018-11-09 | 1 | -2/+2 |
| * | gnu: r-biostrings: Update to 2.50.1.•••* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.50.1.
| Ricardo Wurmus | 2018-11-09 | 1 | -2/+2 |
| * | gnu: r-biocviews: Update to 1.50.5.•••* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.50.5.
| Ricardo Wurmus | 2018-11-09 | 1 | -2/+2 |
| * | gnu: pplacer-scripts: Use INVOKE.•••* gnu/packages/bioinformatics.scm (pplacer-scripts)[arguments]: Use INVOKE and
return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -2/+1 |
| * | gnu: roary: Use INVOKE.•••* gnu/packages/bioinformatics.scm (roary)[arguments]: Use INVOKE and return #T
unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -4/+5 |
| * | gnu: seek: Use INVOKE.•••* gnu/packages/bioinformatics.scm (seek)[arguments]: Use INVOKE and return #T
unconditionally; patch "gen_tools_am" shebang in "bootstrap" phase.
| Ricardo Wurmus | 2018-11-08 | 1 | -11/+14 |
| * | gnu: sailfish: Use INVOKE.•••* gnu/packages/bioinformatics.scm (sailfish)[arguments]: Use INVOKE instead of
SYSTEM*.
| Ricardo Wurmus | 2018-11-08 | 1 | -4/+4 |
| * | gnu: vsearch: Update to 2.9.1.•••* gnu/packages/bioinformatics.scm (vsearch): Update to 2.9.1.
* gnu/packages/patches/vsearch-unbundle-cityhash.patch: Update.
| Ricardo Wurmus | 2018-11-08 | 1 | -2/+2 |
| * | gnu: sra-tools: Update to 2.9.3.•••* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.3.
[arguments]: Remove build phase patch-away-glibc-conflict.
| Ricardo Wurmus | 2018-11-08 | 1 | -14/+2 |
| * | gnu: plink-ng: Fetch sources from git.•••* gnu/packages/bioinformatics.scm (plink-ng)[source]: Fetch from git.
| Ricardo Wurmus | 2018-11-08 | 1 | -5/+6 |
| * | gnu: ncbi-vdb: Update to 2.9.3.•••* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.9.3.
| Ricardo Wurmus | 2018-11-08 | 1 | -2/+2 |
| * | gnu: ngs-sdk: Update to 2.9.3.•••* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 2.9.3.
| Ricardo Wurmus | 2018-11-08 | 1 | -2/+2 |
| * | gnu: ngs-sdk: Use INVOKE.•••* gnu/packages/bioinformatics.scm (ngs-sdk)[arguments]: Use INVOKE and
return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -3/+4 |
| * | gnu: emboss: Use INVOKE.•••* gnu/packages/bioinformatics.scm (emboss)[arguments]: Use INVOKE and
return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -1/+1 |
| * | gnu: taxtastic: Use INVOKE.•••* gnu/packages/bioinformatics.scm (taxtastic)[arguments]: Use INVOKE and
return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -2/+1 |
| * | gnu: sra-tools: Use INVOKE.•••* gnu/packages/bioinformatics.scm (sra-tools)[arguments]: Use INVOKE and
return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -3/+3 |
| * | gnu: muscle: Use INVOKE.•••* gnu/packages/bioinformatics.scm (muscle)[arguments]: Use INVOKE and
return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -2/+3 |
| * | gnu: newick-utils: Remove custom autoconf phase.•••* gnu/packages/bioinformatics.scm (newick-utils)[arguments]: Remove.
| Ricardo Wurmus | 2018-11-08 | 1 | -5/+0 |
| * | gnu: mash: Remove custom autoconf phase.•••* gnu/packages/bioinformatics.scm (mash)[arguments]: Remove autoconf phase.
| Ricardo Wurmus | 2018-11-08 | 1 | -3/+1 |
| * | gnu: vsearch: Remove custom autogen phase.•••* gnu/packages/bioinformatics.scm (vsearch)[arguments]: Remove.
| Ricardo Wurmus | 2018-11-08 | 1 | -5/+0 |
| * | gnu: java-picard-1.113: Use INVOKE.•••* gnu/packages/bioinformatics.scm (java-picard-1.113)[arguments]: Use INVOKE
and return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -17/+19 |
| * | gnu: fraggenescan: Use INVOKE.•••* gnu/packages/bioinformatics.scm (fraggenescan)[arguments]: Use INVOKE in
build phases and return #T unconditionally.
| Ricardo Wurmus | 2018-11-08 | 1 | -17/+22 |
| * | gnu: sailfish: Fetch sources from git.•••* gnu/packages/bioinformatics.scm (sailfish)[source]: Fetch from git.
| Ricardo Wurmus | 2018-11-08 | 1 | -6/+6 |
| * | gnu: ngs-sdk: Fetch sources from git.•••* gnu/packages/bioinformatics.scm (ngs-sdk)[source]: Fetch from git.
| Ricardo Wurmus | 2018-11-08 | 1 | -10/+9 |
| * | gnu: ncbi-vdb: Use INVOKE and end phases on #T.•••* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Use INVOKE and
unconditionally end phases with #T.
| Ricardo Wurmus | 2018-11-08 | 1 | -3/+3 |
| * | gnu: ncbi-vdb: Fetch sources from git.•••* gnu/packages/bioinformatics.scm (ncbi-vdb)[source]: Fetch from git.
[arguments]: Add phase to make checkout writable.
| Ricardo Wurmus | 2018-11-08 | 1 | -10/+11 |
| * | gnu: tadbit: Fetch sources from git.•••* gnu/packages/bioinformatics.scm (tadbit)[source]: Fetch from git.
[version]: Use "2.0.0" instead of "2.0".
| Ricardo Wurmus | 2018-11-08 | 1 | -6/+7 |
