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2023-01-09gnu: r-rgl: Update to 0.111.6.•••* gnu/packages/cran.scm (r-rgl): Update to 0.111.6. Ricardo Wurmus
2023-01-09gnu: r-ncdf4: Update to 1.21.•••* gnu/packages/cran.scm (r-ncdf4): Update to 1.21. Ricardo Wurmus
2023-01-09gnu: r-afex: Update to 1.2-1.•••* gnu/packages/cran.scm (r-afex): Update to 1.2-1. Ricardo Wurmus
2023-01-09gnu: r-raster: Update to 3.6-13.•••* gnu/packages/cran.scm (r-raster): Update to 3.6-13. Ricardo Wurmus
2023-01-09gnu: r-drtmle: Update to 1.1.2.•••* gnu/packages/cran.scm (r-drtmle): Update to 1.1.2. Ricardo Wurmus
2023-01-09gnu: r-netrep: Update to 1.2.6.•••* gnu/packages/cran.scm (r-netrep): Update to 1.2.6. Ricardo Wurmus
2023-01-09gnu: r-precrec: Update to 0.14.1.•••* gnu/packages/cran.scm (r-precrec): Update to 0.14.1. [propagated-inputs]: Add r-rlang. Ricardo Wurmus
2023-01-09gnu: r-writexl: Update to 1.4.2.•••* gnu/packages/cran.scm (r-writexl): Update to 1.4.2. Ricardo Wurmus
2023-01-09gnu: r-officer: Update to 0.5.1.•••* gnu/packages/cran.scm (r-officer): Update to 0.5.1. [propagated-inputs]: Add r-openssl. Ricardo Wurmus
2023-01-09gnu: r-billboarder: Update to 0.4.0.•••* gnu/packages/cran.scm (r-billboarder): Update to 0.4.0. [native-inputs]: Update js-billboard to 3.6.3. Ricardo Wurmus
2023-01-09gnu: r-reticulate: Update to 1.27.•••* gnu/packages/cran.scm (r-reticulate): Update to 1.27. Ricardo Wurmus
2023-01-09gnu: r-rastervis: Update to 0.51.5.•••* gnu/packages/cran.scm (r-rastervis): Update to 0.51.5. Ricardo Wurmus
2023-01-09gnu: r-heatmaply: Update to 1.4.2.•••* gnu/packages/cran.scm (r-heatmaply): Update to 1.4.2. Ricardo Wurmus
2023-01-09gnu: r-expm: Update to 0.999-7.•••* gnu/packages/cran.scm (r-expm): Update to 0.999-7. Ricardo Wurmus
2023-01-09gnu: r-zlog: Update to 1.0.2.•••* gnu/packages/cran.scm (r-zlog): Update to 1.0.2. Ricardo Wurmus
2023-01-09gnu: r-seriation: Update to 1.4.1.•••* gnu/packages/cran.scm (r-seriation): Update to 1.4.1. Ricardo Wurmus
2023-01-09gnu: r-mitml: Update to 0.4-4.•••* gnu/packages/cran.scm (r-mitml): Update to 0.4-4. Ricardo Wurmus
2023-01-09gnu: r-timedate: Update to 4022.108.•••* gnu/packages/cran.scm (r-timedate): Update to 4022.108. Ricardo Wurmus
2023-01-09gnu: r-lava: Update to 1.7.1.•••* gnu/packages/cran.scm (r-lava): Update to 1.7.1. Ricardo Wurmus
2023-01-09gnu: r-rstpm2: Update to 1.5.9.•••* gnu/packages/cran.scm (r-rstpm2): Update to 1.5.9. Ricardo Wurmus
2023-01-09gnu: r-htmlwidgets: Update to 1.6.1.•••* gnu/packages/cran.scm (r-htmlwidgets): Update to 1.6.1. Ricardo Wurmus
2023-01-09gnu: r-collections: Update to 0.3.7.•••* gnu/packages/cran.scm (r-collections): Update to 0.3.7. Ricardo Wurmus
2023-01-09gnu: Add r-httr2.•••* gnu/packages/cran.scm (r-httr2): New variable. Ricardo Wurmus
2023-01-09gnu: LLVM, Clang, libomp, lld: Update to 15.0.6.•••* gnu/packages/llvm.scm (llvm-15, clang-15, libomp-15, lld-15): Update to 15.0.6. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Greg Hogan
2023-01-09gnu: Add minetest-mobs-monster.•••* gnu/packages/minetest.scm (minetest-mobs-monster): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Vivien Kraus
2023-01-09gnu: Add minetest-wielded-light.•••* gnu/packages/minetest.scm (minetest-wielded-light): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Vivien Kraus
2023-01-09services: base: Add environment support to guix-configuration.•••* gnu/services/base.scm (<guix-configuration>)[extra-env]: New field. (guix-shepherd-service): Honor it. * doc/guix.texi (Base Services): Document it. Mathieu Othacehe
2023-01-09gnu: Add r-gg3d.•••* gnu/packages/bioinformatics.scm (r-gg3d): New variable. Ricardo Wurmus
2023-01-09home: environment-variables: Fix escaping.•••* gnu/home/services.scm (environment-variable-shell-definitions): Fix escaping. * tests/guix-home.sh: Add STRING_WITH_ESCAPES environment variable and test its value. Reported-by: elevnkb Andrew Tropin
2023-01-09home: environment-variables: Return support for file-likes and gexps.•••* gnu/home/services.scm (environment-variable-shell-definitions): Add support for file-likes and gexps. * tests/guix-home.sh: Add SHELL environment variable and test its value. Add BUILDHOSTTIME environment variable. Andrew Tropin
2023-01-09gnu: ikiwiki: Remove input labels.•••* gnu/packages/web.scm (ikiwiki)[native-inputs, inputs]: Remove labels. Marius Bakke
2023-01-09gnu: ikiwiki: Add missing inputs.•••This fixes a regression from a1f9eba892784069e34338e01237a74b8a3bd8a2 whereby loading po4a as a library fails. * gnu/packages/web.scm (ikiwiki)[inputs]: Add PERL-SYNTAX-KEYWORD-TRY and PERL-XS-PARSE-KEYWORD. Marius Bakke
2023-01-09gnu: python-afdko: Fix failing tests.•••* gnu/packages/patches/python-afdko-suppress-copyright-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/fontutils.scm (python-afdko)[source](patches): New field. Marius Bakke
2023-01-09gnu: Remove java-ecj-3.•••* gnu/packages/java.scm (java-ecj-3): Remove variable. Ricardo Wurmus
2023-01-09gnu: ant-junit: Fix inheritance by using gexp.•••* gnu/packages/java.scm (ant-junit)[arguments]: Use gexp; also remove trailing #T from build phases. Ricardo Wurmus
2023-01-09gnu: ant-apache-bcel: Fix inheritance by using gexp.•••* gnu/packages/java.scm (ant-apache-bcel)[arguments]: Use gexp; also remove trailing #T from build phases. Ricardo Wurmus
2023-01-09gnu: java-cisd-jhdf5: Do not override default JDK.•••* gnu/packages/java.scm (java-cisd-jhdf5)[arguments]: Remove override for JDK. Ricardo Wurmus
2023-01-09gnu: java-cisd-jhdf5: Remove trailing #T.•••* gnu/packages/java.scm (java-cisd-jhdf5)[source]: Remove trailing #T from snippet. [arguments]: Remove trailing #T from build phases. Ricardo Wurmus
2023-01-09gnu: java-ecj: Do not inherit from java-ecj-3.•••* gnu/packages/java.scm (java-ecj): Do not inherit fields from java-ecj-3. [arguments]: Merge build phases 'fix-build.xml and 'fix-prop; remove trailing #T. Ricardo Wurmus
2023-01-09gnu: Remove java-ecj-3.5.•••* gnu/packages/java.scm (java-ecj-3.5): Remove variable. Ricardo Wurmus
2023-01-09gnu: java-cisd-args4j: Do not build with icedtea-7.•••* gnu/packages/java.scm (java-cisd-args4j)[arguments]: Do not override JDK. Ricardo Wurmus
2023-01-09gnu: java-cisd-args4j: Use later version of ECJ.•••* gnu/packages/java.scm (java-cisd-args4j)[native-inputs]: Replace java-ecj-3.5 with java-ecj. Ricardo Wurmus
2023-01-09gnu: java-cisd-args4j: Remove trailing #T from build phase.•••* gnu/packages/java.scm (java-cisd-args4j)[arguments]: Remove trailing #T from build phase. Ricardo Wurmus
2023-01-09gnu: java-jgit-4.2: Remove trailing #T from build phase.•••* gnu/packages/java.scm (java-jgit-4.2)[arguments]: Remove trailing #T from build phase. Ricardo Wurmus
2023-01-09gnu: java-jgit-4.2: Do not build with icedtea-7.•••* gnu/packages/java.scm (java-jgit-4.2)[arguments]: Do not override JDK. Ricardo Wurmus
2023-01-09gnu: Move Java bootstrap packages to separate module.•••* gnu/packages/java.scm (ant/java8): Do not inherit from ant-bootstrap. (ant)[arguments]: Replace to avoid rebuilding. (jikes, classpath-bootstrap, jamvm-1-bootstrap, ant-bootstrap, ecj-bootstrap, ecj-javac-wrapper, classpath-0.99, classpath-jamvm-wrappers, classpath-devel, jamvm, ecj-javac-wrapper-final, ecj4-bootstrap, ecj4-javac-wrapper, jamvm-with-ecj4): Move these packages from here... * gnu/packages/java-bootstrap.scm: ...to this new file. * gnu/local.mk (GNU_SYSTEM_MODULES): Register new file. Ricardo Wurmus
2023-01-08gnu: Move Java XML packages to new module.•••* gnu/packages/xml.scm (java-simple-xml, java-jaxp, java-apache-xml-commons-resolver, java-jaxen, java-xom, java-xsdlib, java-xpp3, java-xmlpull2, java-xmlpull-api-v1, java-dom4j, java-kxml2, java-stax, java-jettison, java-jdom2, java-xstream, java-mxparser): Move these variables from here... * gnu/packages/java-xml.scm: ...to this new file. * gnu/local.mk (GNU_SYSTEM_MODULES): Register new file. * gnu/packages/axoloti.scm, gnu/packages/batik.scm, gnu/packages/bioinformatics.scm, gnu/packages/groovy.scm, gnu/packages/java.scm, gnu/packages/maven.scm: Adjust module imports. Ricardo Wurmus
2023-01-08gnu: Remove linux-libre 4.9.•••This kernel series is no longer supported upstream: https://lkml.iu.edu/hypermail/linux/kernel/2301.0/06398.html https://www.kernel.org/category/releases.html * gnu/packages/aux-files/linux-libre/4.9-i686.conf, gnu/packages/aux-files/linux-libre/4.9-x86_64.conf: Delete files. * Makefile.am (AUX_FILES): Remove them. * gnu/packages/linux.scm (linux-libre-4.9-version, linux-libre-4.9-gnu-revision, deblob-scripts-4.9, linux-libre-4.9-pristine-source, linux-libre-4.9-source, linux-libre-headers-4.9, linux-libre-4.9): Remove variables. * gnu/tests/base.scm (%test-linux-libre-4.9): Likewise. Leo Famulari
2023-01-08gnu: tectonic: Update to 0.12.0.•••* gnu/packages/rust-apps.scm (tectonic): Update to 0.12.0. * gnu/packages/crates-io.scm (rust-tectonic-bridge-graphite2): Update to 0.2.1. [arguments]: Do not skip build. [native-inputs]: Add PKG-CONFIG. [inputs]: Add GRAPHITE2. (rust-tectonic-bundles): Update to 0.3. [arguments]: Do not skip build. <#:cargo-inputs>: Update RUST-TECTONIC-IO-BASE to 0.4. [native-inputs]: Add PKG-CONFIG. [inputs]: Add OPENSSL and ZLIB. (rust-tectonic-docmodel): Update to 0.2.0. [arguments]: Do not skip build. (rust-tectonic-engine-xetex): Update to 0.4.1. [arguments]: Do not skip build. <#:cargo-inputs>: Update RUST-TECTONIC-PDF-IO to 0.4 and RUST-TECTONIC-XETEX-LAYOUT to 0.2. [native-inputs]: Add PKG-CONFIG. [inputs]: Add FONTCONFIG, FREETYPE, GRAPHITE2, ICU4C and ZLIB. (rust-tectonic-engine-xdvipdfmx): Update to 0.4.0. [arguments]: Do not skip build. <#:cargo-inputs>: Remove RUST-CBINDGEN, update RUST-TECTONIC-BRIDGE-CORE to 0.3 and RUST-TECTONIC-PDF-IO to 0.4. [native-inputs]: Add PKG-CONFIG. [inputs]: Add LIBPNG and ZLIB. (rust-tectonic-pdf-io): Update to 0.4. [arguments]: Do not skip build. <#:cargo-inputs>: Update RUST-TECTONIC-BRIDGE-CORE to 0.3. (rust-tectonic-xetex-layout): Update to 0.2.1. [arguments]: Do not skip build. <#:cargo-inputs>: Update RUST-TECTONIC-BRIDGE-CORE to 0.3. [native-inputs]: Add PKG-CONFIG. [inputs]: Add FONTCONFIG, FREETYPE, GRAPHITE2, ICU4C and ZLIB. Nicolas Goaziou
2023-01-08gnu: git-annex: Patch 'git-annex webapp' to use hardcoded xdg-open.•••* gnu/packages/haskell-apps.scm (git-annex)[arguments]: Add 'patch-webapp' phase. [inputs]: Add xdg-utils. David Thompson
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