| Age | Commit message (Expand) | Author |
|---|
| 2015-06-17 | gnu: Add diamond....* gnu/packages/bioinformatics.scm (diamond): New variable.
| Ben Woodcroft |
| 2015-06-17 | gnu: miso: Use HTTPS URL....* gnu/packages/bioinformatics.scm (miso)[source]: Use "https" protocol for
downloading the source tarball.
| Ricardo Wurmus |
| 2015-06-17 | gnu: bedops: Update to 2.4.14....* gnu/packages/bioinformatics.scm (bedops): Update to 2.4.14.
| Ricardo Wurmus |
| 2015-06-15 | gnu: orfm: Update to 0.4.1....* gnu/packages/bioinformatics.scm (orfm): Update to 0.4.1.
| Ricardo Wurmus |
| 2015-06-12 | gnu: Add OrfM....* gnu/packages/bioinformatics.scm (orfm): New variable.
Signed-off-by: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
| Ben Woodcroft |
| 2015-06-12 | gnu: Add Couger....* gnu/packages/bioinformatics.scm (couger): New variable.
| Ricardo Wurmus |
| 2015-06-12 | gnu: ngs-sdk: Update to version 1.1.1....* gnu/packages/bioinformatics.scm (ngs-sdk): Update to version 1.1.1.
| Ricardo Wurmus |
| 2015-06-02 | gnu: Add HTSlib....* gnu/packages/bioinformatics.scm (htslib): New variable.
| Ricardo Wurmus |
| 2015-06-02 | gnu: ncbi-vdb: Use "i386" instead of "i686" in directory name....* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Copy libraries from
"linux/gcc/i386" directory instead of "linux/gcc/i686" when building on
i686.
| Ricardo Wurmus |
| 2015-05-27 | gnu: Add edirect....* gnu/packages/bioinformatics.scm (edirect): New variable.
| Ricardo Wurmus |
| 2015-05-27 | gnu: shogun: Remove non-free source files....* gnu/packages/bioinformatics.scm (shogun)[source]: Add snippet to remove
non-free sources.
| Ricardo Wurmus |
| 2015-05-22 | gnu: Add rsem....* gnu/packages/bioinformatics.scm (rsem): New variable.
* gnu/packages/patches/rsem-makefile.patch: New file.
| Ricardo Wurmus |
| 2015-05-05 | gnu: vcftools: Remove "-m64" from CFLAGS....* gnu/packages/bioinformatics.scm (vcftools): Explicitly set CFLAGS to
remove "-m64" flag.
| Ricardo Wurmus |
| 2015-05-04 | gnu: bamtools: Set rpath via LDFLAGS....* gnu/packages/bioinformatics.scm (bamtools): Add a pre-configure phase
setting $LDFLAGS to set the rpath to $out/lib/bamtools.
| Ricardo Wurmus |
| 2015-05-04 | gnu: Add samtools-0.1.19....* gnu/packages/bioinformatics.scm (samtools-0.1): New variable.
| Ricardo Wurmus |
| 2015-05-04 | gnu: samtools: Install libbam.a library....* gnu/packages/bioinformatics.scm (samtools)[arguments]: Add phase
"install-library" to install the libbam.a library.
| Ricardo Wurmus |
| 2015-05-04 | gnu: samtools: Remove patch-makefile-curses phase....* gnu/packages/bioinformatics.scm (samtools)[arguments]: Remove
patch-makefile-curses phase, use make-flags instead.
| Ricardo Wurmus |
| 2015-04-27 | gnu: flexbar: Enable tests....* gnu/packages/bioinformatics.scm (flexbar): Enable tests.
| Ricardo Wurmus |
| 2015-04-21 | gnu: Add eXpress....* gnu/packages/bioinformatics.scm (express): New variable.
| Ricardo Wurmus |
| 2015-04-21 | gnu: Add bamtools....* gnu/packages/bioinformatics.scm (bamtools): New variable.
| Ricardo Wurmus |
| 2015-04-21 | gnu: Add subread....* gnu/packages/bioinformatics.scm (subread): New variable.
| Ricardo Wurmus |
| 2015-04-20 | gnu: Add sra-tools....* gnu/packages/bioinformatics.scm (sra-tools): New variable.
| Ricardo Wurmus |
| 2015-04-20 | gnu: Add NCBI VDB....* gnu/packages/bioinformatics.scm (ncbi-vdb): New variable.
| Ricardo Wurmus |
| 2015-04-20 | gnu: Add NGS Java bindings....* gnu/packages/bioinformatics.scm (ngs-java): New variable.
| Ricardo Wurmus |
| 2015-04-20 | gnu: Add NGS SDK....* gnu/packages/bioinformatics.scm (ngs-sdk): New variable.
| Ricardo Wurmus |
| 2015-04-20 | gnu: Add Biopython....* gnu/packages/bioinformatics.scm (python-biopython, python2-biopython): New
variables.
| Ricardo Wurmus |
| 2015-04-16 | gnu: Add FASTX Toolkit....* gnu/packages/bioinformatics.scm (fastx-toolkit): New variable.
| Ricardo Wurmus |
| 2015-04-13 | gnu: rseqc: Update hash....* gnu/packages/bioinformatics.scm (rseqc): Update hash.
| Ricardo Wurmus |
| 2015-04-10 | gnu: Add GRIT....* gnu/packages/bioinformatics.scm (grit): New variable.
| Ricardo Wurmus |
| 2015-04-09 | gnu: Add Shogun....* gnu/packages/bioinformatics.scm (shogun): New variable.
| Ricardo Wurmus |
| 2015-04-01 | gnu: Add clustal omega....* gnu/packages/bioinformatics.scm (clustal-omega): New variable.
| Ricardo Wurmus |
| 2015-03-31 | gnu: pbtranscript-tofu: Add missing inputs....* gnu/packages/bioinformatics.scm (pbtranscript-tofu)[inputs]: Add missing
runtime inputs.
| Ricardo Wurmus |
| 2015-03-31 | gnu: pbtranscript-tofu: Delete pre-built libraries....* gnu/packages/bioinformatics.scm (pbtranscript-tofu)[arguments]: Delete
"build" directory and any shared objects after unpacking.
| Ricardo Wurmus |
| 2015-03-31 | gnu: Add vcftools....* gnu/packages/bioinformatics.scm (vcftools): New variable.
| Ricardo Wurmus |
| 2015-03-31 | gnu: Add cutadapt....* gnu/packages/bioinformatics.scm (cutadapt): New variable.
| Ricardo Wurmus |
| 2015-03-24 | gnu: Add pbtranscript-tofu....* gnu/packages/bioinformatics.scm (pbtranscript-tofu): New variable.
| Ricardo Wurmus |
| 2015-03-24 | gnu: Add python2-bx-python....* gnu/packages/bioinformatics.scm (python2-bx-python): New variable.
| Ricardo Wurmus |
| 2015-03-24 | gnu: Add python2-pbcore....* gnu/packages/bioinformatics.scm (python2-pbcore): New variable.
| Ricardo Wurmus |
| 2015-03-17 | gnu: Add MISO....* gnu/packages/bioinformatics.scm (miso): New variable.
| Ricardo Wurmus |
| 2015-03-17 | gnu: Add bwa....* gnu/packages/bioinformatics.scm (bwa): New variable.
| Ricardo Wurmus |
| 2015-03-10 | gnu: Add htsjdk....* gnu/packages/bioinformatics.scm (htsjdk): New variable.
| Ricardo Wurmus |
| 2015-03-04 | Merge branch 'core-updates'. | Ludovic Courtès |
| 2015-03-02 | gnu: Add crossmap....* gnu/packages/bioinformatics.scm (crossmap): New variable.
* gnu/packages/patches/crossmap-allow-system-pysam.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
| Ricardo Wurmus |
| 2015-03-02 | gnu: Add CLIPper....* gnu/packages/bioinformatics.scm (clipper): New variable.
| Ricardo Wurmus |
| 2015-03-02 | gnu: Add MACS....* gnu/packages/bioinformatics.scm (macs): New variable.
| Ricardo Wurmus |
| 2015-03-02 | gnu: Add pybedtools....* gnu/packages/bioinformatics.scm (python2-pybedtools): New variable.
| Ricardo Wurmus |
| 2015-02-28 | gnu: Add 'file-name' fields for github source tarballs without a name....* gnu/packages/aarddict.scm (aarddict), gnu/packages/algebra.scm (arb),
gnu/packages/audio.scm (jack-2, lvtk),
gnu/packages/bioinformatics.scm (bedops, bedtools, bowtie),
gnu/packages/game-development.scm (tiled),
gnu/packages/games.scm (minetest-data, minetest, retroarch),
gnu/packages/jrnl.scm (jrnl), gnu/packages/kde.scm (qjson),
gnu/packages/libevent.scm (libuv), gnu/packages/linux.scm (pflask),
gnu/packages/mail.scm (offlineimap, libetpan),
gnu/packages/maths.scm (arpack-ng), gnu/packages/ninja.scm (ninja),
gnu/packages/nutrition.scm (gourmet),
gnu/packages/python.scm (python-cairocffi), gnu/packages/rdf.scm (lrdf),
gnu/packages/ruby.scm (ruby-i18n), gnu/packages/sxiv.scm (sxiv): Add
'file-name' field to origin.
| Mark H Weaver |
| 2015-02-27 | gnu: Remove now unneeded 'unpack' phases for unzip....This is a followup to commit cd0385b.
* gnu/packages/bioinformatics.scm (hisat)[arguments]: Remove 'unpack'
phase.
* gnu/packages/image.scm (freeimage): Likewise.
* gnu/packages/python.scm (python2-cssutils): Likewise.
| Ludovic Courtès |
| 2015-02-20 | gnu: Add HTSeq....* gnu/packages/bioinformatics.scm (htseq): New variable.
| Ricardo Wurmus |
| 2015-02-19 | gnu: Add RSeQC....* gnu/packages/bioinformatics.scm (rseqc): New variable.
| Ricardo Wurmus |
