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2020-09-12build-system: asdf: Switch from bundles to regular compilation.Guillaume Le Vaillant
* gnu/packages/lisp.scm (sbcl, ecl)[native-search-paths]: Add 'XDG_CONFIG_DIRS'. * guix/build-system/asdf.scm (asdf-build): Replace 'asd-file' and 'asd-system-name' keywords by 'asd-files' and 'asd-systems'. * guix/build/asdf-build-system.scm (%object-prefix, %lisp-source-install-prefix): Update variables. (install): Update variable. (main-system-name): New variable. (copy-source): Replace 'asd-file' and 'asd-system-name' keywords by 'asd-files' and 'asd-systems'. (configure): New variable. (build, check): Replace 'asd-file' and 'asd-system-name' keywords by 'asd-files' and 'asd-systems'. (create-asd-file, symlink-asd-files): Remove variables. (create-asdf-configuration): New variable. (cleanup-files): Update variable. (%standard-phases): Remove 'create-asd-file' and 'symlink-asd-files' phases. Add 'configure' and 'create-asdf-configuration' phases. * guix/build/lisp-utils.scm (%bundle-install-prefix, normalize-dependency, inputs->asd-file-map, asdf-load-all, compile-system): Remove variables. (compile-systems): New variable. (system-dependencies, compiled-system, generate-system-definition): Remove variable. (test-system): Replace 'asd-file' parameter by 'asd-files'. (generate-executable-for-system): Update variable. (generate-dependency-links, make-asd-file, bundle-asd-file): Remove variables. (make-asdf-configuration): New variable. (build-program, build-image): Set 'XDG_CONFIG_DIRS'. (generate-executable): Update variable.
2020-09-12ui: Lexicographically sort transaction entries based on their package name.Maxim Cournoyer
* guix/ui.scm (show-manifest-transaction): Sort entries to be displayed in a tabulated view.
2020-09-12ui: Refactor the package-strings helper in show-manifest-transaction.Maxim Cournoyer
* guix/ui.scm (show-manifest-transaction)[package-strings]: Add an OLD-VERSIONS keyword parameter. Absorb the code path previously found in the upgrade-string. Remove upgrade-string. (show-manifest-transaction): Adjust to the above changes.
2020-09-12doc: Document the use of snippets vs phases.Maxim Cournoyer
* doc/contributing.texi (Snippets versus phases): New section.
2020-09-12gnu: python-aiodns: Propagate python-pycares.Danny Milosavljevic
* gnu/packages/python-web.scm (python-aiodns)[inputs]: Move python-pycares... [propagated-inputs]: ...to here.
2020-09-12gnu: Add poezio.Raghav Gururajan
* gnu/packages/messaging.scm (poezio): New variable.
2020-09-12gnu: Add python-potr.Raghav Gururajan
* gnu/packages/python-crypto.scm (python-potr): New variable.
2020-09-12gnu: Add python-slixmpp.Raghav Gururajan
* gnu/packages/python-xyz.scm (python-slixmpp): New variable.
2020-09-12gnu: ebusd: Enable MQTT support.Danny Milosavljevic
* gnu/packages/embedded.scm (ebusd)[inputs]: Add mosquitto.
2020-09-12gnu: Add mosquitto.Danny Milosavljevic
* gnu/packages/messaging.scm (mosquitto): New variable.
2020-09-11gnu: lldpd: Update to 1.0.6.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (lldpd): Update to 1.0.6.
2020-09-11gnu: enet: Update to 1.3.16.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (enet): Update to 1.3.16.
2020-09-11gnu: batctl: Update to 2020.3.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (batctl): Update to 2020.3.
2020-09-11Revert "gnu: dovecot: Set moduledir to global directory."Tobias Geerinckx-Rice
This reverts commit db0109be42547d5dbb0fc1eb8ae30ccc968ed88b. Same reason as commit d9d88c2ff0d367599d0a851ccf9377c4e21079d6.
2020-09-11Revert "services: dovecot: Use modules via symlink to system profile."Tobias Geerinckx-Rice
This reverts commit bcfe0f0c1e9a2b91049d7c6c591c7f0c6a002c14 for now. It breaks most current use(r)s of the Dovecot service and needs to be combined with an extra modules configuration field of some kind. See <https://issues.guix.gnu.org/43347>.
2020-09-11gnu: padthv1: Update to 0.9.17.Tobias Geerinckx-Rice
* gnu/packages/music.scm (padthv1): Update to 0.9.17. [inputs]: Replace fftw with fftwf.
2020-09-11gnu: libetpan: Update to 1.9.4.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (libetpan): Update to 1.9.4.
2020-09-11gnu: bsequencer: Update to 1.6.0.Ricardo Wurmus
* gnu/packages/music.scm (bsequencer): Update to 1.6.0.
2020-09-11gnu: r-adaptivesparsity: End build phase on #T.Ricardo Wurmus
* gnu/packages/cran.scm (r-adaptivesparsity)[arguments]: End phase "link-against-armadillo" with Boolean.
2020-09-11gnu: r-adaptivesparsity: Fix case of "Gaussian".Ricardo Wurmus
* gnu/packages/cran.scm (r-adaptivesparsity)[description]: Fix typo.
2020-09-11gnu: r-qtl: Use CRAN-URI.Ricardo Wurmus
* gnu/packages/cran.scm (r-qtl)[source]: Use CRAN-URI instead of explicit mirror URL.
2020-09-11gnu: r-qtl: Correct indentation.Ricardo Wurmus
* gnu/packages/cran.scm (r-qtl): Reindent. [description]: Reflow paragraphs.
2020-09-11gnu: r-absfiltergsea: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-absfiltergsea): Move from here... * gnu/packages/cran.scm (r-absfiltergsea): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-diversitree: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-diversitree): Move from here... * gnu/packages/cran.scm (r-diversitree): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-phangorn: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-phangorn): Move from here... * gnu/packages/cran.scm (r-phangorn): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-seurat: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-seurat): Move from here... * gnu/packages/cran.scm (r-seurat): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-maldiquant: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-maldiquant): Move from here... * gnu/packages/cran.scm (r-maldiquant): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-seqminer: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-seqminer): Move from here... * gnu/packages/cran.scm (r-seqminer): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-qtl2: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-qtl2): Move from here... * gnu/packages/cran.scm (r-qtl2): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-qtl: Move to (gnu packages cran).zimoun
* gnu/packages/bioinformatics.scm (r-qtl): Move from here... * gnu/packages/cran.scm (r-qtl): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-igraph: Move to (gnu packages cran).zimoun
* gnu/packages/graph.scm (r-igraph): Move from here... * gnu/packages/cran.scm (r-igraph): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-diffusionmap: Move to (gnu packages cran).zimoun
* gnu/packages/graph.scm (r-diffusionmap): Move from here... * gnu/packages/cran.scm (r-diffusionmap): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-adaptivesparsity: Move to (gnu packages cran).zimoun
* gnu/packages/machine-learning.scm (r-adaptivesparsity): Move from here... * gnu/packages/cran.scm (r-adaptivesparsity): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-codedepends: Comment why it is in bioconductor.scm.zimoun
* gnu/packages/bioconductor.scm (r-codedepends): Add comment.
2020-09-11gnu: Add r-fhtest.Peter Lo
* gnu/packages/bioconductor.scm (r-fhtest): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: Add r-interval.Peter Lo
* gnu/packages/bioconductor.scm (r-interval): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: Add r-perm.Peter Lo
* gnu/packages/cran.scm (r-perm): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: Add r-mlecens.Peter Lo
* gnu/packages/cran.scm (r-mlecens): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: Add r-icens.Peter Lo
* gnu/packages/bioconductor.scm (r-icens): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2020-09-11gnu: r-tidymodels: Update to 0.1.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-tidymodels): Update to 0.1.1. [propagated-inputs]: Remove r-pillar, r-tidyposterior, r-tidypredict, and r-tidytext; add r-modeldata and r-tidyr. [native-inputs]: Add r-rmarkdown, pandoc, and pandoc-citeproc.
2020-09-11gnu: r-infer: Update to 0.5.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-infer): Update to 0.5.3.
2020-09-11gnu: Add r-modeldata.Ricardo Wurmus
* gnu/packages/cran.scm (r-modeldata): New variable.
2020-09-11gnu: r-parsnip: Update to 0.1.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-parsnip): Update to 0.1.3.
2020-09-11gnu: r-tidytext: Update to 0.2.5.Ricardo Wurmus
* gnu/packages/cran.scm (r-tidytext): Update to 0.2.5. [propagated-inputs]: Remove r-stopwords; add r-tibble.
2020-09-11gnu: r-tidypredict: Update to 0.4.6.Ricardo Wurmus
* gnu/packages/cran.scm (r-tidypredict): Update to 0.4.6.
2020-09-11gnu: r-tune: Update to 0.1.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-tune): Update to 0.1.1. [propagated-inputs]: Add r-vctrs.
2020-09-11gnu: r-dials: Update to 0.0.8.Ricardo Wurmus
* gnu/packages/cran.scm (r-dials): Update to 0.0.8.
2020-09-11gnu: r-yardstick: Update to 0.0.7.Ricardo Wurmus
* gnu/packages/cran.scm (r-yardstick): Update to 0.0.7. [propagated-inputs]: Remove r-rcpp.
2020-09-11gnu: r-workflows: Update to 0.1.3.Ricardo Wurmus
* gnu/packages/cran.scm (r-workflows): Update to 0.1.3.
2020-09-11gnu: r-hardhat: Update to 0.1.4.Ricardo Wurmus
* gnu/packages/cran.scm (r-hardhat): Update to 0.1.4.
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