Age | Commit message (Collapse) | Author |
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* gnu/packages/bioinformatics.scm (r-gostats): New variable.
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* gnu/packages/bioinformatics.scm (r-category): New variable.
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* gnu/packages/bioinformatics.scm (r-gseabase): New variable.
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* gnu/packages/bioinformatics.scm (r-rbgl): New variable.
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* gnu/packages/bioinformatics.scm (r-annotationforge): New variable.
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* gnu/packages/bioinformatics.scm (r-deseq2): New variable.
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* gnu/packages/bioinformatics.scm (r-genefilter): New variable.
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* gnu/packages/bioinformatics.scm (r-geneplotter): New variable.
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* gnu/packages/bioinformatics.scm (r-annotate): New variable.
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* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.7.0.
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* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.7.0.
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* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 1.2.5.
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* gnu/packages/patches/plink-endian-detection.patch: New file.
* gnu/packages/bioinformatics.scm (plink)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Register it.
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* gnu/packages/bioinformatics.scm (prank)[arguments]: Add a phase
removing the '-m64' compiler flag.
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* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.22.
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* gnu/packages/bioinformatics.scm (jellyfish)[supported-systems}: New
field, limit support to x86_64.
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* gnu/packages/bioinformatics.scm (vsearch): Update to 2.1.0.
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* gnu/packages/bioinformatics.scm (r-biocinstaller): New variable.
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* gnu/packages/bioinformatics.scm (python-biom-format, python2-biom-format)
[inputs]: Move all from here ...
[propagated-inputs]: ... to here.
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* gnu/packages/bioinformatics.scm (seqmagick)[inputs]: Use
python2-biopython-1.66 instead of python2-biopython.
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* gnu/packages/bioinformatics.scm (python2-biopython-1.66): New variable.
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* gnu/packages/bioinformatics.scm (python-biopython)[properties]: New field.
[native-inputs]: Remove field.
(python-biopython): Use 'strip-python-variant'.
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* gnu/packages/bioinformatics.scm (python-biopython): Update to 1.68.
[arguments]: New field.
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* gnu/packages/bioinformatics.scm (seqtk): New variable.
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* gnu/packages/bioinformatics.scm (bowtie): Update to 2.2.9.
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* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.3.0.
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* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.3.0.
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* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.3.0.
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* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.3.0.
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* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.3.0.
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* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.6.6.
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* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.24.3.
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* gnu/packages/bioinformatics.scm (r-limma): Update to 3.28.21.
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* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.7.
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* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.8.7.
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* gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-1.
[propagated-inputs]: Add "r-segmented".
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* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.10.3.
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* gnu/packages/bioinformatics.scm (r-acsnminer): Update to 0.16.8.25.
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* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-1.
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* gnu/packages/bioinformatics.scm (mash): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
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* gnu/packages/bioinformatics.scm (bamm): Update to 1.7.3.
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* gnu/packages/bioinformatics.scm (infernal)[supported-systems]: The
package requires VMX or SSE capability for parallel instructions, so
limit it to those supported systems.
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* gnu/packages/bioinformatics.scm (infernal): New variable.
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* gnu/packages/bioinformatics.scm (subread): Update to 1.5.1.
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* gnu/packages/bioinformatics.scm (aragorn): Update to 1.2.37.
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* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.20.
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* gnu/packages/bioinformatics.scm (r-bamsignals): New variable.
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* gnu/packages/bioinformatics.scm (r-rhtslib): New variable.
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* gnu/packages/bioinformatics.scm (clipper): Update to 1.1.
[source]: Delete pre-built libraries.
[inputs]: Add python2-pandas.
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* gnu/packages/bioinformatics.scm (minced): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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