~ruther/guix-local

ref: 0f3847bfd84bb52a7f6da52cfa358aded8570310 guix-local/gnu/packages/bioinformatics.scm -rw-r--r-- 361.6 KiB
0d2b2fd4 — Ben Woodcroft 9 years ago 
gnu: diamond: Update to 0.9.3.

* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.3.
ca40d4e7 — Ben Woodcroft 9 years ago 
gnu: diamond: Update to 0.9.2.

* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.2.
b608765a — Ben Woodcroft 9 years ago 
gnu: diamond: Update to 0.9.1.

* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.1.
296b3c63 — Ricardo Wurmus 9 years ago 
gnu: Add r-edaseq.

* gnu/packages/bioinformatics.scm (r-edaseq): New variable.
7b465327 — Ricardo Wurmus 9 years ago 
gnu: Add r-deseq.

* gnu/packages/bioinformatics.scm (r-deseq): New variable.
d4b83651 — Ricardo Wurmus 9 years ago 
gnu: Add r-aroma-light.

* gnu/packages/bioinformatics.scm (r-aroma-light): New variable.
74297231 — Ben Woodcroft 9 years ago 
gnu: fraggenescan: Update to 1.30.

* gnu/packages/bioinformatics.scm (fraggenescan): Update to 1.30.
[arguments]: Update patching of paths, install procedure.  Add new test
case.
75696130 — Ben Woodcroft 9 years ago 
gnu: roary: Update to 3.8.2.

* gnu/packages/bioinformatics.scm (roary): Update to 3.8.2.
3cbfc149 — Ben Woodcroft 9 years ago 
gnu: taxtastic: Update to 0.6.4.

* gnu/packages/bioinformatics.scm (taxtastic): Update to 0.6.4.
[source]: Use PyPI URI.
b4584137 — Roel Janssen 9 years ago 
gnu: r-mutationalpatterns: Update to 1.2.1.

* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.2.1.
ef81341f — Ben Woodcroft 9 years ago 
gnu: diamond: Update to 0.9.0.

* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.0.
[license]: Change to AGPL3+.
88682c9a — Ben Woodcroft 9 years ago 
gnu: fasttree: Update to 2.1.10.

* gnu/packages/bioinformatics.scm (fasttree): Update to 2.1.10.
abc08cba — Ben Woodcroft 9 years ago 
gnu: python-biom-format: Update to 2.1.6.

* gnu/packages/bioinformatics.scm (python-biom-format): Update to 2.1.6.
[propagated-inputs]: Add python-pandas.
2b18ad05 — Pjotr Prins 9 years ago 
gnu: Add gemma.

* gnu/packages/bioinformatics.scm (gemma): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2252f087 — Ludovic Courtès 9 years ago 
gnu: guile-json: Rename "guile2.2-json" to "guile-json".

* gnu/packages/guile.scm (guile-json)[native-inputs]: Change GUILE-2.0
to GUILE-2.2.
(guile2.2-json): Define using 'deprecated-package'.
(guile2.0-json): New variable.
* gnu/packages/bioinformatics.scm (rcas-web)[inputs]: Update accordingly.
* gnu/packages/ci.scm (cuirass)[inputs]: Likewise.
* gnu/packages/package-management.scm (guix)[inputs]: Likewise.
c033f5d6 — Ben Woodcroft 9 years ago 
gnu: Add pplacer.

* gnu/packages/bioinformatics.scm (pplacer, pplacer-scripts): New
variables.
ad0ae297 — Ben Woodcroft 9 years ago 
gnu: Add taxtastic.

* gnu/packages/bioinformatics.scm (taxtastic): New variable.
2f3108ad — Petter 9 years ago 
gnu: Avoid circular dependencies by Perl license.

* guix/licenses.scm (perl-license): New variable.
* gnu/packages/bioinformatics.scm: Change (package-license perl) to perl-license.
* gnu/packages/compression.scm: Same.
* gnu/packages/databases.scm: Same.
* gnu/packages/gd.scm: Same.
* gnu/packages/language.scm: Same.
* gnu/packages/libevent.scm: Same.
* gnu/packages/mail.scm: Same.
* gnu/packages/messaging.scm: Same.
* gnu/packages/ncurses.scm: Same.
* gnu/packages/networking.scm: Same.
* gnu/packages/photo.scm: Same.
* gnu/packages/tcl.scm: Same.
* gnu/packages/tex.scm: Same.
* gnu/packages/tls.scm: Same.
* gnu/packages/web.scm: Same.
* gnu/packages/wm.scm: Same.
* gnu/packages/xml.scm: Same.
* gnu/packages/xorg.scm: Same.
* gnu/packages/zip.scm: Same.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
f4322542 — Roel Janssen 9 years ago 
gnu: vcftools: Update to 0.1.15.

* gnu/packages/bioinformatics.scm (vcftools): Update to 0.1.15.
90f83099 — Efraim Flashner 9 years ago 
gnu: r-genomeinfodbdata: Fix source url.

* gnu/packages/bioinformatics.scm (r-genomeinfodbdata)[source]: Use
source uri and not bioconductor-uri shortener.
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