~ruther/guix-local

ref: 6cbc8d5766e11cb6fefb7c281d6d6854793a3d24 guix-local/gnu/packages/bioinformatics.scm -rw-r--r-- 192.7 KiB
953c1223 — Ricardo Wurmus 10 years ago 
gnu: bless: Remove bundled sources for sparsehash.

* gnu/packages/bioinformatics.scm (bless)[source]: Delete
"google-sparsehash" sources.
[inputs]: Add "sparsehash".
6c1305f9 — Ricardo Wurmus 10 years ago 
gnu: Add CD-HIT.

* gnu/packages/bioinformatics.scm (cd-hit): New variable.
247d498a — Roel Janssen 10 years ago 
gnu: Add r-dnacopy.

* gnu/packages/bioinformatics.scm (r-dnacopy): New variable.
6a35566d — Rob Syme 10 years ago 
gnu: Add codingquarry.

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

Signed-off-by: Leo Famulari <leo@famulari.name>
10b4a969 — Ricardo Wurmus 10 years ago 
gnu: htsjdk: Use ant-build-system.

* gnu/packages/bioinformatics.scm (htsjdk)[build-system]: Use
ant-build-system.
[arguments]: Adapt for ant-build-system.
846e3409 — Ricardo Wurmus 10 years ago 
gnu: Add pyicoteo.

* gnu/packages/bioinformatics.scm (pyicoteo): New variable.
a0a71439 — Roel Janssen 10 years ago 
gnu: Add bioawk.

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

Signed-off-by: Leo Famulari <leo@famulari.name>
649e9b3b — Ricardo Wurmus 10 years ago 
gnu: python-pysam: Move cython and setuptools to native inputs.

* gnu/packages/bioinformatics.scm (python-pysam)[inputs]: Move
"python-cython" and "python-setuptools" from here...
[native-inputs]: ... to here.
3acb8c85 — Ricardo Wurmus 10 years ago 
gnu: deeptools: Update to 2.1.1.

* gnu/packages/bioinformatics.scm (deeptools): Update to 2.1.1.
[inputs]: Add "python2-numpydoc" and "python2-pybigwig".
14bda1ff — Ricardo Wurmus 10 years ago 
gnu: deeptools: Change "propagated-inputs" to "inputs".

* gnu/packages/bioinformatics.scm (deeptools)[propagated-inputs]: Move
all inputs from here...
[inputs]: ...to here.
69e0e03c — Ricardo Wurmus 10 years ago 
gnu: Add python-pybigwig.

* gnu/packages/bioinformatics.scm (python-pybigwig, python2-pybigwig):
  New variables.
d454640c — Ricardo Wurmus 10 years ago 
gnu: python-pysam: Update to 0.8.4.

* gnu/packages/bioinformatics.scm (python-pysam): Update to 0.8.4.
55a9a8c2 — Ricardo Wurmus 10 years ago 
gnu: python-pysam, python2-pysam: Move to bioinformatics.scm.

* gnu/packages/python.scm (python-pysam, python2-pysam): Move to...
* gnu/packages/bioinformatics.scm (python-pysam, python2-pysam):
  ...here.
f82c8c3c — Pjotr Prins 10 years ago 
gnu: r-go-db: Bioconductor changed URL for data downloads.

* gnu/packages/bioinformatics.scm (r-go-db)[source]: Update data URL.
27acfaea — Pjotr Prins 10 years ago 
gnu: r-iranges: Update to 2.4.8.

* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.4.8.
8921841d — Pjotr Prins 10 years ago 
gnu: r-s4vectors: Update to 0.8.11.

* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.8.11.
d1e32822 — Ricardo Wurmus 10 years ago 
gnu: Add PePr.

* gnu/packages/bioinformatics.scm (pepr): New variable.
d29150b5 — Ricardo Wurmus 10 years ago 
gnu: Add bwa-pssm.

* gnu/packages/bioinformatics.scm (bwa-pssm): New variable.
b3546174 — Mark H Weaver 10 years ago 
gnu: Fix misplaced commas (unquote).

Fix many occurrences of comma (unquote) being placed immediately after the
previous list item, e.g. ("ncurses", ncurses) in the inputs.

* gnu/packages/base.scm (patch, gnu-make),
  gnu/packages/bioinformatics.scm (hmmer),
  gnu/packages/bittorrent.scm (aria2),
  gnu/packages/compression.scm (pbzip2),
  gnu/packages/databases.scm (recutils),
  gnu/packages/fonts.scm (font-terminus),
  gnu/packages/freedesktop.scm (xdg-utils, elogind),
  gnu/packages/games.scm (gnujump),
  gnu/packages/gnome.scm (libidl, gnumeric, eog, gedit),
  gnu/packages/gnunet.scm (gnunet),
  gnu/packages/gnuzilla.scm (mozjs, nspr),
  gnu/packages/gtk.scm (gtksourceview, gdk-pixbuf),
  gnu/packages/lua.scm (lua),
  gnu/packages/openstack.scm (python-swiftclient),
  gnu/packages/perl.scm (perl-json-any),
  gnu/packages/polkit.scm (polkit-qt),
  gnu/packages/python.scm (wrap-python3, python-oauthlib)
  (python-mccabe-0.2.1, python-contextlib2, python2-rauth),
  gnu/packages/qt.scm (qtkeychain),
  gnu/packages/ruby.scm (ruby-nokogiri),
  gnu/packages/screen.scm (screen),
  gnu/packages/ssh.scm (libssh),
  gnu/packages/video.scm (ffmpeg, mplayer),
  gnu/packages/vim.scm (vim),
  gnu/packages/xdisorg.scm (redshift),
  gnu/packages/xfce.scm (xfce4-panel, xfce4-settings),
  gnu/packages/xnee.scm (xnee),
  gnu/packages/xorg.scm (font-adobe100dpi, font-adobe75dpi),
  gnu/packages/zsh.scm (zsh): Fix misplaced commas (unquote).
736f9ffc — Ludovic Courtès 10 years ago 
gnu: Add missing import in bioinformatics.scm.

This is a followup to 1baee94.

* gnu/packages/bioinformatics.scm: Add missing import.
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