| Age | Commit message (Expand) | Author |
|---|
| 2017-03-16 | gnu: Add r-seurat....* gnu/packages/bioinformatics.scm (r-seurat): New variable.
Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
| Raoul Jean Pierre Bonnal |
| 2017-03-16 | gnu: sra-tools: Update to 2.8.2-1....* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.8.2-1.
[arguments]: Add DEFAULT_CRT and DEFAULT_KFG to make flags.
| Ricardo Wurmus |
| 2017-03-16 | gnu: ncbi-vdb: Install configuration files....* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Add phase
"install-configuration-files".
| Ricardo Wurmus |
| 2017-03-16 | gnu: ncbi-vdb: Override search path for java-ngs....* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Patch "package.prl"
to ensure that java-ngs is found by the configure script; remove configure
flag "--with-ngs-java-prefix".
| Ricardo Wurmus |
| 2017-03-16 | gnu: ncbi-vdb: Use modify-phases syntax....* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Use modify-phases
syntax.
| Ricardo Wurmus |
| 2017-03-16 | gnu: ncbi-vdb: Update to 2.8.2....* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.8.2.
| Ricardo Wurmus |
| 2017-03-16 | gnu: ngs-sdk: Update to 1.3.0....* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 1.3.0.
| Ricardo Wurmus |
| 2017-03-15 | gnu: Use INSTALL-FILE where appropriate....* gnu/packages/admin.scm (wpa-supplicant-minimal): Substitute the simpler
INSTALL-FILE for COPY-FILE when invoked with redundant arguments.
* gnu/packages/bioinformatics.scm (couger, aragorn, express-beta-diversity,
edirect, fasttree, rsem, samtools-0.1): Likewise.
* gnu/packages/code.scm (withershins): Likewise.
* gnu/packages/conky.scm (conky): Likewise.
* gnu/packages/debug.scm (delta, american-fuzzy-lop): Likewise.
* gnu/packages/emacs.scm (emacs-mit-scheme-doc): Likewise.
* gnu/packages/engineering.scm (librecad): Likewise.
| Tobias Geerinckx-Rice |
| 2017-03-15 | gnu: samtools: End installation phases with truth....* gnu/packages/bioinformatics.scm (samtools, samtools-0.1)[arguments]:
Return #T instead of the undefined results of COPY-FILE or INSTALL-FILE.
| Tobias Geerinckx-Rice |
| 2017-03-11 | gnu: vsearch: Update to 2.4.2....* gnu/packages/bioinformatics.scm (vsearch): Update to 2.4.2.
| Ben Woodcroft |
| 2017-03-11 | gnu: Add r-ape....* gnu/packages/bioinformatics.scm (r-ape): New variable.
Co-authored-by: Ben Woodcroft <donttrustben@gmail.com>
| Raoul Jean Pierre Bonnal |
| 2017-03-10 | gnu: hmmer: Build reproducibly....* gnu/packages/patches/hmmer-remove-cpu-specificity.patch: New file.
* gnu/packages/bioinformatics.scm (hmmer): Use it.
| Ben J. Woodcroft |
| 2017-03-10 | gnu: Add sambamba....* gnu/packages/bioinformatics.scm (htslib-for-sambamba, sambamba): New
variables.
| Ricardo Wurmus |
| 2017-03-03 | Merge branch 'python-tests' | Marius Bakke |
| 2017-03-02 | gnu: diamond: Update to 0.8.36....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.36.
| Ben Woodcroft |
| 2017-02-28 | gnu: bamtools: Update to 2.4.1....* gnu/packages/bioinformatics.scm (bamtools): Update to 2.4.1.
| Ricardo Wurmus |
| 2017-02-27 | gnu: ribodiff: Fix test failure....* gnu/packages/bioinformatics.scm (ribodiff)[native-inputs]: Add PYTHON2-MOCK
and PYTHON2-NOSE.
| Marius Bakke |
| 2017-02-24 | gnu: python-dendropy: Fix failing tests....* gnu/packages/patches/python-dendropy-fix-tests.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/bioinformatics.scm (python-dendropy)[source]: Add patch.
| Ricardo Wurmus |
| 2017-02-13 | Merge branch 'master' into python-tests | Marius Bakke |
| 2017-02-09 | gnu: vsearch: Update to 2.4.0....* gnu/packages/bioinformatics.scm (vsearch): Update to 2.4.0.
[source]: Convert most operations in the snippet to patch form and adjust
for 2.4.0.
* gnu/packages/patches/vsearch-unbundle-cityhash.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
| Ben Woodcroft |
| 2017-02-01 | gnu: r-edger: Add r-statmod to inputs....* gnu/packages/bioinformatics.scm (r-edger)[propagated-inputs]: Add r-statmod.
| Ricardo Wurmus |
| 2017-02-01 | download: url-fetch/tarball: Make ‘name’ truly optional....* guix/download.scm (url-fetch/tarbomb): Fall back to ‘file-name’ if
‘name’ is #f, like the regular ‘url-fetch’ does.
* gnu/packages/bioinformatics.scm (muscle)[source]: Remove ‘file-name’.
* gnu/packages/engineering.scm (fastcap)[source]: Likewise.
* gnu/packages/scheme.scm (scmutils)[source]: Likewise.
| Tobias Geerinckx-Rice |
| 2017-01-31 | gnu: Add r-rhdf5. | Raoul Jean Pierre Bonnal |
| 2017-01-31 | gnu: Add r-tximport. | Raoul Jean Pierre Bonnal |
| 2017-01-30 | gnu: Add r-bsgenome-hsapiens-1000genomes-hs37d5....* gnu/packages/bioinformatics.scm (r-bsgenome-hsapiens-1000genomes-hs37d5):
New variable.
| Roel Janssen |
| 2017-01-21 | gnu: r-vegan: Update to 2.4-2....* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-2.
| Ben Woodcroft |
| 2017-01-21 | gnu: diamond: Update to 0.8.34....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.34.
| Ben Woodcroft |
| 2017-01-20 | gnu: r-msnid: Expand abbreviation in description....* gnu/packages/bioinformatics.scm (r-msnid)[description]: Expand "MS/MS"
to "tandem mass spectrometry".
| Ricardo Wurmus |
| 2017-01-20 | gnu: r-msnbase: Expand abbreviation in description....* gnu/packages/bioinformatics.scm (r-msnbase)[description]: Expand "MS"
to "mass spectrometry".
| Ricardo Wurmus |
| 2017-01-18 | gnu: multiqc: Add python-nose to inputs....* gnu/packages/bioinformatics.scm (multiqc)[propagated-inputs]: Add
python-nose.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-msnid....* gnu/packages/bioinformatics.scm (r-msnid): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-msnbase....* gnu/packages/bioinformatics.scm (r-msnbase): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-pcamethods....* gnu/packages/bioinformatics.scm (r-pcamethods): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-mzid....* gnu/packages/bioinformatics.scm (r-mzid): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-vsn....* gnu/packages/bioinformatics.scm (r-vsn): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-affy....* gnu/packages/bioinformatics.scm (r-affy): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-affyio....* gnu/packages/bioinformatics.scm (r-affyio): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-mzr....* gnu/packages/bioinformatics.scm (r-mzr): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-protgenerics....* gnu/packages/bioinformatics.scm (r-protgenerics): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-maldiquant....* gnu/packages/bioinformatics.scm (r-maldiquant): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-raremetals2....* gnu/packages/bioinformatics.scm (r-raremetals2): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add r-seqminer....* gnu/packages/bioinformatics.scm (r-seqminer): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add ribodiff....* gnu/packages/bioinformatics.scm (ribodiff): New variable.
| Ricardo Wurmus |
| 2017-01-17 | gnu: Add hisat2....* gnu/packages/bioinformatics.scm (hisat2): New variable.
| Ricardo Wurmus |
| 2017-01-16 | gnu: Add r-centipede....* gnu/packages/bioinformatics.scm (r-centipede): New variable.
| Ricardo Wurmus |
| 2017-01-14 | gnu: Add r-sva....* gnu/packages/bioinformatics.scm (r-sva): New variable.
| Raoul Jean Pierre Bonnal |
| 2017-01-13 | Merge branch 'master' into python-tests | Leo Famulari |
| 2017-01-12 | gnu: Add r-txdb-mmusculus-ucsc-mm10-knowngene....* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene): New variable.
| Roel Janssen |
| 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 |
