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* etc/committer: Disable diff colors.Ricardo Wurmus2021-04-08
| | | | | | Reported by: morgansmith on IRC. * etc/committer.scm.in (diff-info): Invoke "git diff" with "--no-color".
* ci: Introduce new subsets.Mathieu Othacehe2021-04-08
| | | | | | Introduce 'images, 'system-tests and 'tarball subsets. * gnu/ci.scm (cuirass-jobs): Break the 'all subset into smaller subsets.
* ci: Remove the job period argument.Mathieu Othacehe2021-04-08
| | | | | | | Cuirass now deals with periodicity directly on specifications. * gnu/ci.scm (derivation->job): Remove the period argument. (image-jobs, system-test-jobs, tarball-jobs): Adapt them.
* gnu: r-genomicfeatures: Update to 1.42.3.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.42.3.
* gnu: r-gviz: Update to 1.34.1.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioconductor.scm (r-gviz): Update to 1.34.1.
* gnu: r-universalmotif: Update to 1.8.4.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioconductor.scm (r-universalmotif): Update to 1.8.4.
* gnu: r-rsubread: Update to 2.4.3.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioconductor.scm (r-rsubread): Update to 2.4.3.
* gnu: r-chippeakanno: Update to 3.24.2.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.24.2. [propagated-inputs]: Add r-dplyr.
* gnu: r-diffbind: Update to 3.0.15.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioconductor.scm (r-diffbind): Update to 3.0.15.
* gnu: r-genomeinfodb: Update to 1.26.6.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.26.6.
* gnu: r-delayedarray: Update to 0.16.3.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/bioconductor.scm (r-delayedarray): Update to 0.16.3.
* gnu: Add texlive-mweights.Paul Garlick2021-04-08
| | | | * gnu/packages/tex.scm: New variable.
* gnu: axoloti-runtime: Simplify build.Morgan Smith2021-04-08
| | | | | | | * gnu/packages/axoloti.scm (axoloti-runtime)[arguments]: Remove unnecessary environment variable assignments in custom 'build phase. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: gcc-arm-none-eabi: Fix C++ header location.Morgan Smith2021-04-08
| | | | | | | | | | | | | | Previously the C++ headers where installed in the include folder, overwriting some C headers. * gnu/packages/embedded.scm (gcc-arm-none-eabi-4.9) [native-search-paths]: Add C++ header locations. (gcc-arm-none-eabi-7-2018-q2-update)[native-search-paths]: Add C++ header locations. (make-libstdc++-arm-none-eabi)[arguments]: Change C++ header install location to include/c++. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* etc/committer: Recompute hunks before processing changes.Ricardo Wurmus2021-04-08
| | | | | * etc/committer.scm.in (main): Re-evaluate diff-info after processing insertions.
* etc/committer: Record minimal context for hunks to avoid problems.Ricardo Wurmus2021-04-08
| | | | | | | | | | | | With zero context new definitions would be applied to the wrong location in the file. More context lines lead to larger hunks, though, so we use just one line of context. * etc/committer.scm.in (diff-info): Invoke "git diff" with one line of context. [info]: Merge line break and first line. (lines-to-first-change): New procedure. (old-sexp, new-sexp): Use it.
* etc/committer: Define delay duration as a variable.Ricardo Wurmus2021-04-08
| | | | | * etc/committer.scm.in (%delay): New variable. (main): Use it.
* etc/committer: Handle package additions.Ricardo Wurmus2021-04-08
| | | | | | | | | | | | | * etc/committer.scm.in (<hunk>)[diff]: Rename this field... [diff-lines]: ...to this. [definition?]: New field. (hunk->patch): Join diff lines. (diff-info): Do not join diff lines; record whether a hunk is a new definition. (commit-message): Rename this procedure... (change-commit-message): ...to this. (add-commit-message): New procedure. (main): Handle new package definitions before changes.
* gnu: r-sn: Update to 2.0.0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-sn): Update to 2.0.0.
* gnu: r-sfsmisc: Update to 1.1-10.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-sfsmisc): Update to 1.1-10.
* gnu: r-e1071: Update to 1.7-6.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/statistics.scm (r-e1071): Update to 1.7-6. [propagated-inputs]: Add r-proxy.
* gnu: r-xml: Update to 3.99-0.6.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-xml): Update to 3.99-0.6.
* gnu: r-rsqlite: Update to 2.2.5.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-rsqlite): Update to 2.2.5.
* gnu: r-catools: Update to 1.18.2.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-catools): Update to 1.18.2.
* gnu: r-dbplyr: Update to 2.1.1.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-dbplyr): Update to 2.1.1.
* gnu: r-survival: Update to 3.2-10.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/statistics.scm (r-survival): Update to 3.2-10.
* gnu: r-stars: Update to 0.5-2.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-stars): Update to 0.5-2.
* gnu: r-lwgeom: Update to 0.2-6.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/cran.scm (r-lwgeom): Update to 0.2-6. [inputs]: Add zlib.
* gnu: r-ragg: Update to 1.1.2.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-ragg): Update to 1.1.2.
* gnu: r-textshaping: Update to 0.3.3.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-textshaping): Update to 0.3.3.
* gnu: r-bbotk: Update to 0.3.2.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-bbotk): Update to 0.3.2.
* gnu: r-mlr3learners: Update to 0.4.5.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-mlr3learners): Update to 0.4.5.
* gnu: r-mlr3misc: Update to 0.8.0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-mlr3misc): Update to 0.8.0.
* gnu: r-phangorn: Update to 2.6.3.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/cran.scm (r-phangorn): Update to 2.6.3. [native-inputs]: Add r-knitr.
* gnu: r-qtl: Update to 1.48-1.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-qtl): Update to 1.48-1.
* gnu: r-altmeta: Update to 3.3.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-altmeta): Update to 3.3.
* gnu: r-tidyposterior: Update to 0.1.0.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/cran.scm (r-tidyposterior): Update to 0.1.0. [propagated-inputs]: Remove r-lifecycle; add r-tune and r-workflowsets.
* gnu: r-slider: Update to 0.2.1.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/cran.scm (r-slider): Update to 0.2.1. [propagated-inputs]: Add r-ellipsis.
* gnu: r-yardstick: Update to 0.0.8.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/cran.scm (r-yardstick): Update to 0.0.8. [propagated-inputs]: Add r-vctrs.
* gnu: r-muhaz: Update to 1.2.6.3.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-muhaz): Update to 1.2.6.3.
* gnu: r-cpp11: Update to 0.2.7.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-cpp11): Update to 0.2.7.
* gnu: r-spatstat: Update to 2.1-0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-spatstat): Update to 2.1-0.
* gnu: r-spatstat-linnet: Update to 2.1-1.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-spatstat-linnet): Update to 2.1-1.
* gnu: r-spatstat-core: Update to 2.0-0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-spatstat-core): Update to 2.0-0.
* gnu: r-spatstat-geom: Update to 2.0-1.Ricardo Wurmus2021-04-08
| | | | | * gnu/packages/cran.scm (r-spatstat-geom): Update to 2.0-1. [propagated-inputs]: Remove r-spatstat-sparse.
* gnu: r-spatstat-data: Update to 2.1-0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-spatstat-data): Update to 2.1-0.
* gnu: r-spatstat-sparse: Update to 2.0-0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-spatstat-sparse): Update to 2.0-0.
* gnu: r-spatstat-utils: Update to 2.1-0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-spatstat-utils): Update to 2.1-0.
* gnu: r-shapforxgboost: Update to 0.1.1.Ricardo Wurmus2021-04-08
| | | | | | * gnu/packages/cran.scm (r-shapforxgboost): Update to 0.1.1. [propagated-inputs]: Remove r-lightgbm. [native-inputs]: Add r-knitr.
* gnu: r-lightgbm: Update to 3.2.0.Ricardo Wurmus2021-04-08
| | | | * gnu/packages/cran.scm (r-lightgbm): Update to 3.2.0.
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