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2022-07-03gnu: nim: Update to 1.6.6.Trevor Richards
* gnu/packages/nim.scm (nim): Updated to 1.6.6. Signed-off-by: Christopher Baines <mail@cbaines.net>
2022-07-03gnu: propeller-binutils: Remove source patches.Christopher Baines
None of the patches seem to apply. The patches that are not used with binutils are probably too new for the specific commit used here, and the patches that were once applied have probably been removed, so just don't apply any patches. * gnu/packages/embedded.scm (propeller-binutils)[source]: Remove patches that don't apply.
2022-07-03gnu: java-xpp3: Download source from ci.guix.gnu.org.Christopher Baines
The www.extreme.indiana.edu site is now serving a redirect: This site has been deprecated. You can access an archive of this site at https://web.archive.org/web/20210225153105/https://www.extreme.indiana.edu/. Because this isn't a 404, as it probably should be, guix follows this redirect and gets some content that isn't the file it asked for. To avoid this incorrect behaviour, switch to using a ci.guix.gnu.org URL for the file instead. * gnu/packages/xml.scm (java-xpp3)[source]: Switch the uri to ci.guix.gnu.org.
2022-07-03gnu: curl: Skip failing test on 32-bit architectures.Efraim Flashner
* gnu/packages/curl.scm (curl-7.84.0)[arguments]: Use custom 'skip-failing-tests phase on all 32-bit architectures.
2022-07-03gnu: curl: Fix build on some systems.Efraim Flashner
* gnu/packages/curl.scm (curl-7.84.0)[source]: Add patch to work around implicit function declaration. * gnu/packages/patches/curl-easy-lock.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it.
2022-07-03gnu: Add sqls 0.2.18.muradm
* gnu/packages/databases (sqls): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-07-03gnu: Add go-github-com-sourcegraph-jsonrpc2 0.1.0.muradm
* gnu/packages/golang.scm (go-github-com-sourcegraph-jsonrpc2): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-07-03gnu: Add go-github-com-gorilla-websocket 1.5.0.muradm
* gnu/packages/golang.scm (go-github-com-gorilla-websocket): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2022-07-02gnu: r-ifultools: Patch in removed macros to fix build.Ricardo Wurmus
* gnu/packages/cran.scm (r-ifultools)[arguments]: Define removed compatibility macros.
2022-07-02gnu: r-with-tests: Update to 4.2.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-with-tests): Update to 4.2.1.
2022-07-02gnu: r-tcgabiolinks: Update to 2.24.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-tcgabiolinks): Update to 2.24.3.
2022-07-02gnu: r-bionetstat: Update to 1.16.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bionetstat): Update to 1.16.1.
2022-07-02gnu: r-bgeedb: Update to 2.22.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bgeedb): Update to 2.22.3.
2022-07-02gnu: r-ggbio: Update to 1.44.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ggbio): Update to 1.44.1.
2022-07-02gnu: r-rsubread: Update to 2.10.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.10.4.
2022-07-02gnu: r-biosigner: Update to 1.24.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-biosigner): Update to 1.24.2. [propagated-inputs]: Add r-multiassayexperiment and r-summarizedexperiment.
2022-07-02gnu: r-ropls: Update to 1.28.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ropls): Update to 1.28.2. [propagated-inputs]: Add r-multiassayexperiment and r-summarizedexperiment.
2022-07-02gnu: r-genomicscores: Update to 2.8.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.8.2. [propagated-inputs]: Add r-httr.
2022-07-02gnu: r-clusterprofiler: Update to 4.4.4.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 4.4.4.
2022-07-02gnu: r-batchelor: Update to 1.12.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-batchelor): Update to 1.12.3.
2022-07-02gnu: r-matrixgenerics: Update to 1.8.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-matrixgenerics): Update to 1.8.1.
2022-07-02gnu: r-zellkonverter: Update to 1.6.3.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.6.3.
2022-07-02gnu: r-simplifyenrichment: Update to 1.6.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-simplifyenrichment): Update to 1.6.1.
2022-07-02gnu: r-rtracklayer: Update to 1.56.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-rtracklayer): Update to 1.56.1.
2022-07-02gnu: r-organismdbi: Update to 1.38.1.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-organismdbi): Update to 1.38.1.
2022-07-02gnu: r-limma: Update to 3.52.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-limma): Update to 3.52.2.
2022-07-02gnu: r-ensembldb: Update to 2.20.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ensembldb): Update to 2.20.2.
2022-07-02gnu: r-gld: Update to 2.6.5.Ricardo Wurmus
* gnu/packages/statistics.scm (r-gld): Update to 2.6.5.
2022-07-02gnu: r-clubsandwich: Update to 0.5.7.Ricardo Wurmus
* gnu/packages/statistics.scm (r-clubsandwich): Update to 0.5.7.
2022-07-02gnu: r-ranger: Update to 0.14.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-ranger): Update to 0.14.1.
2022-07-02gnu: r-car: Update to 3.1-0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-car): Update to 3.1-0.
2022-07-02gnu: r-gtools: Update to 3.9.2.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-gtools): Update to 3.9.2.2.
2022-07-02gnu: r-r-rsp: Update to 0.45.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-r-rsp): Update to 0.45.0.
2022-07-02gnu: r-r-utils: Update to 2.12.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-r-utils): Update to 2.12.0.
2022-07-02gnu: r-r-methodss3: Update to 1.8.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-r-methodss3): Update to 1.8.2.
2022-07-02gnu: r-rcpparmadillo: Update to 0.11.2.0.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.11.2.0.0.
2022-07-02gnu: r-dbplyr: Update to 2.2.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-dbplyr): Update to 2.2.1.
2022-07-02gnu: r-rlang: Update to 1.0.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rlang): Update to 1.0.3.
2022-07-02gnu: r-dbi: Update to 1.1.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-dbi): Update to 1.1.3.
2022-07-02gnu: r-nlme: Update to 3.1-158.Ricardo Wurmus
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-158.
2022-07-02gnu: r-spacetime: Update to 1.2-8.Ricardo Wurmus
* gnu/packages/cran.scm (r-spacetime): Update to 1.2-8. [native-inputs]: Add r-knitr.
2022-07-02gnu: r-pkgdown: Update to 2.0.5.Ricardo Wurmus
* gnu/packages/cran.scm (r-pkgdown): Update to 2.0.5.
2022-07-02gnu: r-downlit: Update to 0.4.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-downlit): Update to 0.4.1. [propagated-inputs]: Add r-withr.
2022-07-02gnu: r-clustree: Update to 0.5.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-clustree): Update to 0.5.0.
2022-07-02gnu: r-phangorn: Update to 2.9.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-phangorn): Update to 2.9.0. [propagated-inputs]: Add r-generics.
2022-07-02gnu: r-parsnip: Update to 1.0.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-parsnip): Update to 1.0.0. [propagated-inputs]: Add r-pillar.
2022-07-02gnu: r-tidyposterior: Update to 1.0.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-tidyposterior): Update to 1.0.0.
2022-07-02gnu: r-dials: Update to 1.0.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-dials): Update to 1.0.0. [propagated-inputs]: Add r-pillar.
2022-07-02gnu: r-rsample: Update to 1.0.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-rsample): Update to 1.0.0. [propagated-inputs]: Remove r-lifecycle; add r-glue and r-pillar.
2022-07-02gnu: r-lobstr: Update to 1.1.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-lobstr): Update to 1.1.2. [propagated-inputs]: Remove r-rcpp; add r-cpp11 and r-prettyunits.
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