~ruther/guix-local

ref: 7735c503b5b8dfe7d8963207f4f2cf0b7dfd3894 guix-local/gnu/packages/bioinformatics.scm -rw-r--r-- 140.8 KiB
19f4554c — Ben Woodcroft 10 years ago 
gnu: Add fraggenescan.

* gnu/packages/bioinformatics.scm (fraggenescan): New variable.
e2cd1d0f — Ricardo Wurmus 10 years ago 
gnu: Add GenomicRanges.

* gnu/packages/bioinformatics.scm (r-genomicranges): New variable.
0e7d5560 — Ricardo Wurmus 10 years ago 
gnu: Add XVector.

* gnu/packages/bioinformatics.scm (r-xvector): New variable.
bf7764b7 — Ricardo Wurmus 10 years ago 
gnu: Add GenomeInfoDb.

* gnu/packages/bioinformatics.scm (r-genomeinfodb): New variable.
78addcb0 — Ricardo Wurmus 10 years ago 
gnu: Add IRanges.

* gnu/packages/bioinformatics.scm (r-iranges): New variable.
7485129e — Ricardo Wurmus 10 years ago 
gnu: Add S4Vectors.

* gnu/packages/bioinformatics.scm (r-s4vectors): New variable.
d29b25c4 — Ricardo Wurmus 10 years ago 
gnu: Add BiocGenerics.

* gnu/packages/bioinformatics.scm (r-biocgenerics): New variable.
9fba89e8 — Ricardo Wurmus 10 years ago 
gnu: Add r-acsnminer.

* gnu/packages/bioinformatics.scm (r-acsnminer): New variable.
02f35bb5 — Ben Woodcroft 10 years ago 
gnu: mafft: Update to 7.267.

* gnu/packages/bioinformatics.scm (mafft): Update to 7.267.
[arguments]: Don't include mafft-homologs manpage.
[inputs]: Add gawk and grep.
[propagated-inputs]: Add coreutils.
5f7e17be — Ben Woodcroft 10 years ago 
gnu: Add snap-aligner.

* gnu/packages/bioinformatics.scm (snap-aligner): New variable.
e815c094 — Ben Woodcroft 10 years ago 
gnu: python-biopython, python2-biopython: Update to 1.66.

* gnu/packages/bioinformatics.scm (python-biopython, python2-biopython): Update to 1.66.
[source]: Use PyPi instead of biopython.org.
b49c5a58 — Ricardo Wurmus 10 years ago 
gnu: preseq: Update to 2.0.

* gnu/packages/bioinformatics.scm (preseq): Update to 2.0.
[source]: Add file-name field, remove patches.
[arguments]: Remove unused build phases, add make flags.
[inputs]: Add smithlab-cpp.
* gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch: Remove file.
* gnu/packages/patches/preseq-1.0.2-install-to-PREFIX.patch: Remove
  file.
* gnu-system.am (dist_patch_DATA): Remove them.
c6a24d6e — Ricardo Wurmus 10 years ago 
gnu: Add smithlab-cpp.

* gnu/packages/bioinformatics.scm (smithlab-cpp): New variable.
3d51ec91 — Ricardo Wurmus 10 years ago 
gnu: edirect: Update home page.

* gnu/packages/bioinformatics.scm (edirect)[home-page]: Append trailing
  slash to home page.
c52a382c — Ricardo Wurmus 10 years ago 
gnu: sra-tools: Update to 2.5.4.

* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.5.4.
9e5ef614 — Ricardo Wurmus 10 years ago 
gnu: ncbi-vdb: Update to 2.5.4.

* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.5.4.
614a8977 — Ricardo Wurmus 10 years ago 
gnu: ngs-java: Update to 1.2.2.

* gnu/packages/bioinformatics.scm (ngs-java): Update to 1.2.2.
[arguments]: Remove build phase "fix-java-symlink-installation".
d6a1cd7c — Ricardo Wurmus 10 years ago 
gnu: ngs-sdk: Update to 1.2.2.

* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 1.2.2.
9641a899 — Ricardo Wurmus 10 years ago 
gnu: bless: Build only for x86_64.

* gnu/packages/bioinformatics.scm (bless): Add supported-systems field.
0536727e — Ricardo Wurmus 10 years ago 
gnu: htseq: Propagate numpy.

* gnu/packages/bioinformatics.scm (htseq)[inputs]: Move python2-numpy
  from here ...
[propagated-inputs]: ... to here.
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