| Age | Commit message (Expand) | Author |
|---|
| 2017-01-06 | gnu: Add r-copywriter.•••* gnu/packages/bioinformatics.scm (r-copywriter): New variable.
| Ricardo Wurmus |
| 2017-01-06 | gnu: Add r-copyhelper.•••* gnu/packages/bioinformatics.scm (r-copyhelper): New variable.
| Ricardo Wurmus |
| 2017-01-06 | gnu: Add r-chipseq.•••* gnu/packages/bioinformatics.scm (r-chipseq): New variable.
| Ricardo Wurmus |
| 2017-01-06 | gnu: bioruby: Update to 1.5.1.•••* gnu/packages/bioinformatics.scm (bioruby): Update to 1.5.1.
| Ben J Woodcroft |
| 2017-01-06 | gnu: cd-hit: Update to 4.6.6.•••* gnu/packages/bioinformatics.scm (cd-hit): Update to 4.6.6.
| Ben J Woodcroft |
| 2017-01-04 | gnu: Use HTTPS for all sourceforge.net home pages.•••* gnu/packages/admin.scm (mingetty, clusterssh)[home-page]: Use HTTPS.
* gnu/packages/audio.scm (libbs2b, soxr)[home-page]: Likewise.
* gnu/packages/bioinformatics.scm (bless)[home-page]: Likewise.
* gnu/packages/display-managers.scm (slim)[home-page]: Likewise.
* gnu/packages/games.scm (extremetuxracer)[home-page]: Likewise.
* gnu/packages/ghostscript.scm (gs-fonts)[home-page]: Likewise.
* gnu/packages/haskell.scm (ghc-regex-base, ghc-regex-posix,
ghc-regex-compat)[home-page]: Likewise.
* gnu/packages/image.scm (imlib2)[home-page]: Likewise.
* gnu/packages/libreoffice.scm (librevenge, libcmis, libodfgen, libmwaw)
[home-page]: Likewise.
* gnu/packages/linux.scm (hdparm, acpid, libavc1394, rng-tools)
[home-page]: Likewise.
* gnu/packages/mail.scm (esmtp)[home-page]: Likewise.
* gnu/packages/mp3.scm (ripperx)[home-page]: Likewise.
* gnu/packages/onc-rpc.scm (libtirpc)[home-page]: Likewise.
* gnu/packages/perl.scm (perl-czplib)[home-page]: Likewise.
* gnu/packages/python.scm (python-pyasn1-modules)[home-page]: Likewise.
* gnu/packages/xdisorg.scm (xosd)[home-page]: Likewise.
| Tobias Geerinckx-Rice |
| 2017-01-03 | gnu: r-genomicranges: Update to 1.26.2.•••* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.26.2.
| Roel Janssen |
| 2017-01-03 | gnu: r-genomeinfodb: Update to 1.10.2.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.2.
| Roel Janssen |
| 2017-01-01 | gnu: python-dendropy: Update to 4.2.0.•••* gnu/packages/bioinformatics.scm (python-dendropy): Update to 4.2.0.
[source]: Remove patch.
(python2-dendropy)[source]: Use the same source as python-dendropy.
* gnu/packages/patches/python-dendropy-exclude-failing-tests.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
| Ben Woodcroft |
| 2017-01-01 | gnu: diamond: Update to 0.8.31.•••* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.31.
| Ben Woodcroft |
| 2016-12-30 | gnu: multiqc: Update to 0.9.•••Suggested by Raoul Bonnal <ilpuccio.febo@gmail.com>.
* gnu/packages/bioinformatics.scm (multiqc): Update to 0.9.
[origin]: Add patch.
* gnu/packages/patches/multiqc-fix-git-subprocess-error.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
| Ben Woodcroft |
| 2016-12-29 | gnu: r-genomicfeatures: Update to 1.26.2.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.26.2.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-biostrings: Update to 2.42.1.•••* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.42.1.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-limma: Update to 3.30.7.•••* gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.7.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-variantannotation: Update to 1.20.2.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.20.2.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-edger: Update to 3.16.5.•••* gnu/packages/bioinformatics.scm (r-edger): Update to 3.16.5.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-genomeinfodb: Update to 1.10.1.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.1.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-iranges: Update to 2.8.1.•••* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.1.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-s4vectors: Update to 0.12.1.•••* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.1.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-biocstyle: Update to 2.2.1.•••* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.2.1.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-deseq2: Update to 1.14.1.•••* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.14.1.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-annotate: Update to 1.52.1.•••* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.52.1.
[propagated-inputs]: Add r-rcurl.
| Ricardo Wurmus |
| 2016-12-29 | gnu: r-qtl: Update to 1.40-8.•••* gnu/packages/bioinformatics.scm (r-qtl): Update to 1.40-8.
| Ricardo Wurmus |
| 2016-12-27 | gnu: r-rcas: Update to 1.1.1.•••* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.1.1.
[propagated-inputs]: Add plotrix.
| Ricardo Wurmus |
| 2016-12-27 | gnu: diamond: Update to 0.8.30.•••* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.30.
| Ben Woodcroft |
| 2016-12-20 | gnu: cutadapt: Use ‘modify-phases’ syntax.•••* gnu/packages/bioinformatics.scm (cutadapt)[arguments]: Use
‘modify-phases’.
| Tobias Geerinckx-Rice |
| 2016-12-19 | gnu: cutadapt: Update to 1.12.•••* gnu/packages/bioinformatics.scm (cutadapt): Update to 1.12.
[inputs]: Add python-xopen.
| Tobias Geerinckx-Rice |
| 2016-12-18 | gnu: Add attribution line for Raoul Bonnal.•••This is a follow-up commit to c9e9154e993f055a438e2e43518bbd0740aaaf24.
* gnu/packages/bioinformatics.scm: Add attribution.
| Ben Woodcroft |
| 2016-12-17 | gnu: star: Update to 2.5.2b.•••* gnu/packages/bioinformatics (star): Update to 2.5.2b.
[source]: Delete precompiled binary.
Co-authored-by: Ben Woodcroft <donttrustben@gmail.com>
| Raoul Bonnal |
| 2016-12-16 | gnu: pbtranscript-tofu: Disable tests.•••* gnu/packages/bioinformatics.scm (pbtranscript-tofu)[arguments]: Set #:tests? #f.
| Marius Bakke |
| 2016-12-16 | gnu: multiqc: Fix test dependencies.•••* gnu/packages/bioinformatics.scm (multiqc)[native-inputs]: Add python-nose.
| Marius Bakke |
| 2016-12-16 | gnu: idr: Remove explicit wrapper. This is now done implicitly.•••* gnu/packages/bioinformatics.scm (idr)[arguments]: Remove #:phases.
| Marius Bakke |
| 2016-12-16 | gnu: idr: Correct inputs.•••* gnu/packages/bioinformatics.scm (idr)[inputs]: Move everything from here ...
[propagated-inputs]: ... to here. Add python-sympy.
| Marius Bakke |
| 2016-12-16 | gnu: idr: Disable tests.•••* gnu/packages/bioinformatics.scm (idr)[arguments]: Set #:tests? #f.
| Marius Bakke |
| 2016-12-16 | gnu: deeptools: Fix test dependency.•••* gnu/packages/bioinformatics.scm (deeptools)[native-inputs]: Add python-nose.
| Marius Bakke |
| 2016-12-16 | gnu: clipper: Fix test dependency.•••* gnu/packages/bioinformatics.scm (clipper)[native-inputs]: Add python2-nose.
| Marius Bakke |
| 2016-12-14 | gnu: Update more dead Google Code home pages.•••* gnu/packages/bioinformatics.scm (cutadapt, mosaik, pepr)[home-page]:
Update to their respective replacements.
| Tobias Geerinckx-Rice |
| 2016-12-14 | gnu: python-biom-format: Fix tests.•••* gnu/packages/bioinformatics.scm (python-biom-format,
python2-biom-format)[native-inputs]: Add python-nose.
| Marius Bakke |
| 2016-12-13 | gnu: diamond: Update to 0.8.29.•••* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.29.
| Ben Woodcroft |
| 2016-12-13 | gnu: orfm: Update to 0.6.1.•••* gnu/packages/bioinformatics.scm (orfm): Update to 0.6.1.
| Ben Woodcroft |
| 2016-12-12 | gnu: orfm: Update to 0.6.0.•••* gnu/packages/bioinformatics.scm (orfm): Update to 0.6.0.
| Ben Woodcroft |
| 2016-12-10 | gnu: vsearch: Update to 2.3.4.•••* gnu/packages/bioinformatics.scm (vsearch): Update to 2.3.4.
| Ben Woodcroft |
| 2016-12-10 | gnu: pardre: Update to 1.1.5-1.•••* gnu/packages/bioinformatics.scm (pardre): update to 1.1.5-1.
[source]: Update source hash.
| Ben Woodcroft |
| 2016-12-08 | gnu: vsearch: Update to 2.3.3.•••* gnu/packages/bioinformatics.scm (vsearch): Update to 2.3.3.
| Ben Woodcroft |
| 2016-12-04 | gnu: aragorn: Update to 1.2.38.•••* gnu/packages/bioinformatics.scm (aragorn): Update to 1.2.38.
| Ben Woodcroft |
| 2016-11-29 | Merge branch 'master' into python-build-system | Hartmut Goebel |
| 2016-11-28 | gnu: Add r-gkmsvm.•••* gnu/packages/bioinformatics.scm (r-gkmsvm): New variable.
| Ricardo Wurmus |
| 2016-11-28 | gnu: Add r-seqgl.•••* gnu/packages/bioinformatics.scm (r-seqgl): New variable.
| Ricardo Wurmus |
| 2016-11-28 | gnu: Add r-chipkernels.•••* gnu/packages/bioinformatics.scm (r-chipkernels): New variable.
| Ricardo Wurmus |
| 2016-11-28 | gnu: Add r-wgcna.•••* gnu/packages/bioinformatics.scm (r-wgcna): New variable.
| Ricardo Wurmus |
