| Age | Commit message (Expand) | Author |
|---|
| 2015-06-29 | gnu: Add Blast+....* gnu/packages/bioinformatics.scm (blast+): New variable.
| Ricardo Wurmus |
| 2015-06-29 | gnu: Add plink....* gnu/packages/bioinformatics.scm (plink): New variable.
* gnu/packages/patches/plink-1.07-unclobber-i.patch: New file.
| Ricardo Wurmus |
| 2015-06-24 | gnu: Add hmmer....* gnu/packages/bioinformatics.scm (hmmer): New variable.
| Ben Woodcroft |
| 2015-06-23 | gnu: star: Update to 2.4.2a....* gnu/packages/bioinformatics.scm (star): Update to 2.4.2a.
| Ricardo Wurmus |
| 2015-06-23 | gnu: miso: Install executables....* gnu/packages/bioinformatics.scm (miso)[source]: Patch "setup.py" to use
"setuptools" so that executables are built.
* gnu/packages/bioinformatics.scm (miso)[native-inputs]: Add "python2-mock"
and "python2-pytz".
| Ricardo Wurmus |
| 2015-06-23 | gnu: Add idr....* gnu/packages/bioinformatics.scm (idr): New variable.
| Ricardo Wurmus |
| 2015-06-21 | gnu: Add fasttree....* gnu/packages/bioinformatics.scm (fasttree): New variable.
| Ben Woodcroft |
| 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 |
