| Age | Commit message (Expand) | Author |
|---|
| 2021-01-14 | gnu: gemma: Add Texinfo markup....* gnu/packages/bioinformatics.scm (gemma)[description]: Use Texinfo
markup.
| Efraim Flashner |
| 2021-01-14 | gnu: gemma: Update to 0.98.3....* gnu/packages/bioinformatics.scm (gemma): Update to 0.98.3.
[source, home-page]: Update to new upstream URI.
[inputs]: Remove eigen, gfortran, lapack.
[arguments]: Remove make-flags. Remove 'find-eigen phase. Rename
'bin-mkdir phase to 'prepare-build and substitute openblas include
directory.
| Efraim Flashner |
| 2020-12-29 | gnu: r-ggbio: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-ggbio): Move from here...
* gnu/packages/bioconductor.scm (r-ggbio): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-gqtlstats: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-gqtlstats): Move from here...
* gnu/packages/bioconductor.scm (r-gqtlstats): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-snpstats: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-snpstats): Move from here...
* gnu/packages/bioconductor.scm (r-snpstats): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-homo-sapiens: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-homo-sapiens): Move from here...
* gnu/packages/bioconductor.scm (r-homo-sapiens): ...to here.
Replace 'string-append' by 'bioconductor-uri' with 'annotation'.
| zimoun |
| 2020-12-29 | gnu: r-erma: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-erma): Move from here...
* gnu/packages/bioconductor.scm (r-erma): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-ldblock: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-ldblock): Move from here...
* gnu/packages/bioconductor.scm (r-ldblock): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-gqtlstats: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-gqtlstats): Move from here...
* gnu/packages/bioconductor.scm (r-gqtlstats): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-gviz: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-gviz): Move from here...
* gnu/packages/bioconductor.scm (r-gviz): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-gwascat: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-gwascat): Move from here...
* gnu/packages/bioconductor.scm (r-gwascat): ...to here.
| zimoun |
| 2020-12-29 | gnu: r-sushi: Move to (gnu packages bioconductor)....* gnu/packages/bioinformatics.scm (r-sushi): Move from here...
* gnu/packages/bioconductor.scm (r-sushi): ...to here.
| zimoun |
| 2020-12-20 | gnu: kentutils: Build with OpenSSL 1.1....* gnu/packages/bioinformatics.scm (kentutils)[inputs]: Change from OPENSSL-1.0
to OPENSSL.
| Marius Bakke |
| 2020-12-20 | gnu: kentutils: Add a file name for the "samtabix" input....* gnu/packages/bioinformatics.scm (kentutils)[native-inputs]: For "samtabix",
add a file name on the origin.
| Marius Bakke |
| 2020-12-09 | gnu: r-keggrest: Update to 1.30.1....* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.30.1.
| Ricardo Wurmus |
| 2020-12-09 | gnu: r-genomeinfodb: Update to 1.26.2....* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.26.2.
| Ricardo Wurmus |
| 2020-12-09 | gnu: r-biocstyle: Update to 2.18.1....* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.18.1.
| Ricardo Wurmus |
| 2020-12-09 | gnu: r-rhtslib: Propagate zlib....* gnu/packages/bioinformatics.scm (r-rhtslib)[inputs]: Move zlib from here...
[propagated-inputs]: ...to here.
(r-variantannotation, r-rsamtools, r-bamsignals, r-rhdf5,
r-methylkit)[inputs]: Remove zlib.
* gnu/packages/bioconductor.scm (r-diffbind, r-quasr, r-cytolib, r-ncdfflow,
r-flowworkspace, r-seqbias)[inputs]: Remove zlib.
| Ricardo Wurmus |
| 2020-12-09 | gnu: r-gqtlstats: Update to 1.21.3....* gnu/packages/bioinformatics.scm (r-gqtlstats): Update to 1.21.3.
| zimoun |
| 2020-12-09 | gnu: r-gqtlbase: Update to 1.21.1....Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
* gnu/packages/bioinformatics.scm (r-gqtlbase): Update to 1.21.1.
[arguments]: Add phase to patch broken NAMESPACE file.
| zimoun |
| 2020-12-09 | gnu: r-biocviews: Update to 1.58.1....* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.58.1.
Co-authored-by: Ricardo Wurmus <reka@elephly.net>.
| zimoun |
| 2020-12-09 | gnu: r-rhdf5: Update to 2.34.0....* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.34.0.
[propagated-inputs]: Add r-rhdf5filters.
[arguments]: Avoid to have a plain directory on the list of libraries to
link.
Co-authored-by: Ricardo Wurmus <reka@elephly.net>.
| zimoun |
| 2020-12-09 | gnu: Add r-rhdf5filters....* gnu/packages/bioinformatics.scm (r-rhdf5filters): New variable.
| Ricardo Wurmus |
| 2020-12-09 | gnu: r-genomationdata: Update to 1.22.0....* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.22.0.
| zimoun |
| 2020-12-09 | gnu: r-sushi: Update to 1.28.0....* gnu/packages/bioinformatics.scm (r-sushi): Update to 1.28.0.
| zimoun |
| 2020-12-09 | gnu: r-gwascat: Update to 2.22.0....* gnu/packages/bioinformatics.scm (r-gwascat): Update to 2.22.0.
[propagated-inputs]: Add r-biocfilecache, r-readr, r-snpstats, and
r-variantannotation; remove r-biocgenerics, r-ggplot2, r-rsamtools, and
r-rtracklayer.
| zimoun |
| 2020-12-09 | gnu: r-gviz: Update to 1.34.0....* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.34.0.
| zimoun |
| 2020-12-09 | gnu: r-ldblock: Update to 1.20.0....* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.20.0.
| zimoun |
| 2020-12-09 | gnu: r-erma: Update to 1.6.0....* gnu/packages/bioinformatics.scm (r-erma): Update to 1.6.0.
| zimoun |
| 2020-12-09 | gnu: r-snpstats: Update to 1.40.0....* gnu/packages/bioinformatics.scm (r-snpstats): Update to 1.40.0.
| zimoun |
| 2020-12-09 | gnu: r-ggbio: Update to 1.38.0....* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.38.0.
| zimoun |
| 2020-12-09 | gnu: r-biovizbase: Update to 1.38.0....* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.38.0.
| zimoun |
| 2020-12-09 | gnu: r-organismdbi: Update to 1.32.0....* gnu/packages/bioinformatics.scm (r-organismdbi): Update to 1.32.0.
| zimoun |
| 2020-12-09 | gnu: r-ensembldb: Update to 2.14.0....* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.14.0.
| zimoun |
| 2020-12-09 | gnu: r-dirichletmultinomial: Update to 1.32.0....* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Update to 1.32.0.
| zimoun |
| 2020-12-09 | gnu: r-complexheatmap: Update to 2.6.2....* gnu/packages/bioinformatics.scm (r-complexheatmap): Update to 2.6.2;
[propagated-inputs]: Add r-cairo, r-digest, r-iranges, r-matrixstats, and
r-s4vectors.
| Roel Janssen |
| 2020-12-09 | gnu: r-genomicfiles: Update to 1.26.0....* gnu/packages/bioinformatics.scm (r-genomicfiles): Update to 1.26.0.
[propagated-inputs]: Add r-matrixgenerics.
| zimoun |
| 2020-12-09 | gnu: r-gage: Update to 2.40.0....* gnu/packages/bioinformatics.scm (r-gage): Update to 2.40.0.
| zimoun |
| 2020-12-09 | gnu: r-keggrest: Update to 1.30.0....* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.30.0.
| zimoun |
| 2020-12-09 | gnu: r-fastseg: Update to 1.36.0....* gnu/packages/bioinformatics.scm (r-fastseg): Update to 1.36.0.
| zimoun |
| 2020-12-09 | gnu: r-annotationhub: Update to 2.22.0....* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.22.0.
| zimoun |
| 2020-12-09 | gnu: r-interactivedisplaybase: Update to 1.28.0....* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Update to 1.28.0.
| zimoun |
| 2020-12-09 | gnu: r-edaseq: Update to 2.24.0....* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.24.0.
| zimoun |
| 2020-12-09 | gnu: r-aroma-light: Update to 3.20.0....* gnu/packages/bioinformatics.scm (r-aroma-light): Update to 3.20.0.
| zimoun |
| 2020-12-09 | gnu: r-msnid: Update to 1.24.0....* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.24.0.
[propagated-inputs]: Add r-annotationdbi, r-annotationhub, r-biocgenerics,
r-biocstyle, r-biostrings, r-ggplot2, r-msmstests, r-purrr, r-rlang, r-runit,
r-stringr, r-tibble, and r-xtable.
| zimoun |
| 2020-12-09 | gnu: r-pcamethods: Update to 1.82.0....* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.82.0.
| zimoun |
| 2020-12-09 | gnu: r-mzid: Update to 1.28.0....* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.28.0.
[propagated-inputs]: Remove r-rcpp.
| zimoun |
| 2020-12-09 | gnu: r-vsn: Update to 3.58.0....* gnu/packages/bioinformatics.scm (r-vsn): Update to 3.58.0.
| zimoun |
| 2020-12-09 | gnu: r-affy: Update to 1.68.0....* gnu/packages/bioinformatics.scm (r-affy): Update to 1.68.0.
| zimoun |
| 2020-12-09 | gnu: r-affyio: Update to 1.60.0....* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.60.0.
| zimoun |
