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2018-11-20Merge branch 'master' into core-updatesMarius Bakke
2018-11-19build-system: Add 'clojure-build-system'....* guix/build-system/clojure.scm, guix/build/clojure-build-system.scm: New files. * guix/build/clojure-utils.scm (@*, @@*): New macros. (%source-dirs, %test-dirs, %compile-dir, %main-class, %omit-source?, %aot-include, %aot-exclude, %tests?, %test-include, %test-exclude, %clojure-regex): New variables. (package-name->jar-names, canonicalize-relative-path, find-files*, file-sans-extension, relative-path->clojure-lib-string, find-clojure-libs, compiled-from?, include-list\exclude-list, eval-with-clojure, create-jar): New procedures. * Makefile.am (MODULES): Add them. * doc/guix.texi (Build Systems): Document 'clojure-build-system'. Alex Vong
2018-11-18gnu: ocaml: Update to 4.7.0....Update ocaml to the latest version and fixes dependent packages by updating them or by adding new inputs, such as ocaml-num and ocamlbuild, that were removed from the core ocaml package. Rename packages that cannot be built with the new compiler with an ocaml4.02 prefix. Add ocaml4.02 dependencies. * gnu/packages/ocaml.scm (ocaml): Update to 4.7.0. (ocaml-4.02, ocamlbuild, camlp4-4.02, ocaml-num, ocaml4.02-menhir) (ocaml4.02-lablgtk, ocaml4.02-findlib, ocaml4.02-ounit, ocaml4.02-camlzip) (ocaml4.02-ocamlmod, ocaml4.02-zarith, ocaml4.02-qcheck, ocaml4.02-qtest) (ocaml4.02-stringext, ocaml4.02-bisect, dune, ocaml-migrate-parsetree) (ocaml-ppx-tools-versioned, ocaml-ppx-tools-versioned) (ocaml4.02-bitstring, ocaml4.02-result, ocaml4.02-topkg, ocaml4.02-rresult) (ocaml4.02-sqlite3, ocaml4.02-csv, ocaml4.02-mtime, ocaml4.02-cmdliner) (ocaml4.02-fmt, ocaml4.02-astring, ocaml4.02-alcotest, ocaml4.02-ppx-tools) (ocaml4.02-react, ocaml4.02-ssl, ocaml4.02-lwt, ocaml-lwt-log) (ocaml4.02-lwt-log, ocaml4.02-logs, ocaml4.02-fpath, ocaml4.02-bos) (ocaml4.02-xmlm, ocaml4.02-ulex, ocaml4.02-uchar, ocaml4.02-uutf) (ocaml4.02-jsonm, ocaml4.02-ocurl, ocaml4.02-base64, ocaml4.02-omake) (ocaml4.02-batteries, ocaml4.02-pcre, ocaml4.02-oasis) (ocaml4.02-js-build-tools, ocaml4.02-cppo, ocaml-seq, ocaml4.02-seq) (ocaml4.02-re, ocaml4.02-ocplib-endian, ocaml4.02-easy-format) (ocaml4.02-piqilib, ocaml4.02-uuidm, ocaml4.02-graph, ocaml4.02-piqi) (ocaml4.02-camomile, ocaml4.02-zed, ocaml4.02-lambda-term): New packages. (opam): Update to 2.0.0. (camlp4): Update to 4.07+1. (camlp5): Update to 7.06. (hevea): Update to 2.32. (coq)[inputs]: Add ocaml-num. (emacs-tuareg): Update to 2.2.0. (ocaml-menhir)[native-inputs]: Add ocamlbuild. (ocaml-lablgtk): Update to 2.18.6. (unison)[inputs]: Use ocaml-4.02. (ocaml-findlib): Update to 1.8.0. (ocaml-ounit)[native-inputs]: Add ocamlbuild. (ocamlmod): Update to 0.0.9. (ocaml-frontc)[arguments]: Use ocaml-4.02. (ocaml-qcheck)[native-inputs]: Add ocamlbuild. (ocaml-qtest)[native-inputs]: Remove ocaml-findlib and add ocamlbuild. (ocaml-stringext)[native-inputs]: Add ocamlbuild. (ocaml-bisect): Update to 1.3.1. (ocaml4.01-bisect): Downgrade to 1.3. (ocaml-bitstring): Update to 3.1.0. (ocaml-topkg)[native-inputs]: Add ocamlbuild. (ocaml-rresult)[native-inputs]: Add ocamlbuild. (ocaml-sqlite3)[native-inputs]: Add ocamlbuild. (ocaml-csv)[native-inputs]: Add ocamlbuild. (ocaml-mtime)[native-inputs]: Add ocamlbuild. (ocaml-cmdliner)[native-inputs]: Add ocamlbuild. (ocaml-fmt)[native-inputs]: Add ocamlbuild. (ocaml-astring)[native-inputs]: Add ocamlbuild. (ocaml-alcotest)[native-inputs]: Add ocamlbuild. (ocaml-ppx-tools)[native-inputs]: Add ocamlbuild. (ocaml-react)[native-inputs]: Add ocamlbuild. (ocaml-ssl)[arguments]: Return #t in phases. (ocaml-lwt): Update to 4.1.0. (ocaml-logs)[native-inputs]: Add ocamlbuild. (ocaml-fpath)[native-inputs]: Add ocamlbuild. (ocaml-bos)[native-inputs]: Add ocamlbuild. (ocaml-xmlm): Update to 1.3.0. (ocaml-ulex): Update to 1.2.0. (ocaml-uchar)[native-inputs]: Add ocamlbuild. (ocaml-uutf): Update to 1.0.1. (ocaml-jsonm): Update to 1.0.1. (ocaml-ocurl): Update to 0.8.2. (ocaml-base64)[native-inputs]: Add ocamlbuild. (ocamlify)[native-inputs]: Use ocaml-4.02. (omake): Update to 0.10.3. (ocaml-batteries): Update to 2.9.0. (ocaml-pcre)[native-inputs]: Add ocamlbuild. (ocaml-expect): Update 0.0.6. (ocaml4.02-fileutils): Update to 0.5.3. (ocaml-oasis): Update 0.4.11. (ocaml-js-build-tools)[native-inputs]: Add ocamlbuild. (ocaml-bin-prot): Rename to ocaml4.02-bin-prot. (ocaml-fieldslib): Rename to ocaml4.02-fieldslib. (ocaml-ppx-core): Rename to ocaml4.02-ppx-core. (ocaml-ppx-optcomp): Rename to ocaml4.02-ppx-optcomp. (ocaml-ppx-driver): Rename to ocaml4.02-ppx-driver. (ocaml-cppo): Update to 1.6.5. (ocaml-ppx-deriving): Rename to ocaml4.02-ppx-deriving. (ocaml-ppx-type-conv): Rename to ocaml4.02-ppx-type-conv. (ocaml-ppx-inline-test): Rename to ocaml4.02-ppx-inline-test. (ocaml-ppx-bench): Rename to ocaml4.02-ppx-bench. (ocaml-ppx-compare): Rename to ocaml4.02-ppx-compare. (ocaml-sexplib): Rename to ocaml4.02-sexplib. (ocaml-typerep): Rename to ocaml4.02-typerep. (ocaml-variantslib): Rename to ocaml4.02-variantslib. (ocaml-ppx-sexp-conv): Rename to ocaml4.02-ppx-sexp-conv. (ocaml-ppx-variants-conv): Rename to ocaml4.02-ppx-variants-conv. (ocaml-ppx-here): Rename to ocaml4.02-ppx-here. (ocaml-ppx-assert): Rename to ocaml4.02-ppx-assert. (ocaml-ppx-enumerate): Rename to ocaml4.02-ppx-enumerate. (ocaml-ppx-let): Rename to ocaml4.02-ppx-let. (ocaml-ppx-typerep-conv): Rename to ocaml4.02-ppx-typerep-conv. (ocaml-ppx-sexp-value): Rename to ocaml4.02-ppx-sexp-value. (ocaml-ppx-pipebang): Rename to ocaml4.02-ppx-pipebang. (ocaml-ppx-bin-prot): Rename to ocaml4.02-ppx-bin-prot. (ocaml-ppx-fail): Rename to ocaml4.02-ppx-fail. (ocaml-ppx-custom-printf): Rename to ocaml4.02-ppx-custom-printf. (ocaml-ppx-sexp-message): Rename to ocaml4.02-ppx-sexp-message. (ocaml-ppx-fields-conv): Rename to ocaml4.02-ppx-fields-conv. (ocaml-re): Update to 1.8.0. (ocaml-ppx-expect): Rename to ocaml4.02-ppx-expect. (ocaml-ppx-jane): Rename to ocaml4.02-ppx-jane. (ocaml-core-kernel): Rename to ocaml4.02-core-kernel. (ocaml-async-kernel): Rename to ocaml4.02-async-kernel. (ocaml-async-rpc-kernel): Rename to ocaml4.02-async-rpc-kernel. (ocaml-core): Rename to ocaml4.02-core. (ocaml-async-unix): Rename to ocaml4.02-async-unix. (ocaml-async-extra): Rename to ocaml4.02-async-extra. (ocaml-async): Rename to ocaml4.02-async. (ocaml-ocplib-endian)[native-inputs]: Update to 1.0. (ocaml-cstruct): Rename to ocaml4.02-cstruct. (ocaml-hex): Rename to ocaml4.02-hex. (ocaml-ezjsonm): Rename to ocaml4.02-ezjsonm. (ocaml-uri): Rename to ocaml4.02-uri. (optcomp): Use ocaml-4.02. (ocaml-piqilib): Update to 0.6.14. (ocaml-uuidm)[native-inputs]: Add ocamlbuild. (ocaml-graph): Update to 1.8.8. (ocaml-piqi): Update to 0.7.6. (bap): Update to 1.3.0. (ocaml-camomile): Update to 1.0.1. (ocaml-jbuilder): Use ocaml-4.02. (ocaml-lambda-term): Update to 1.13. (ocaml-utop): Update to 2.2.0. (ocaml-integers)[native-inputs]: Add ocamlbuild. (ocaml-ctypes): Update to 0.14.0. (ocaml-ocb-stubblr)[native-inputs]: Add ocamlbuild. (ocaml-tsdl)[native-inputs]: Add ocamlbuild. * gnu/packages/machine-learning.scm (ocaml-mcl): Use ocaml-4.02. * gnu/packages/maths.scm (cubicle): Update to 1.1.2. * gnu/packages/patches/ocaml-bisect-fix-camlp4-in-another-directory.patch: Update patch. * guix/build-system/ocaml.scm: (default-ocaml4.02, default-ocaml4.02-findlib) (package-with-ocaml4.02, strip-ocaml4.02-variant): New variables. Julien Lepiller
2018-11-07Merge branch 'master' into core-updatesMarius Bakke
2018-11-06guix: Update to Bioconductor 3.8....* guix/import/cran.scm (%bioconductor-version): Update to 3.8. * guix/build-system/r.scm (bioconductor-uri): Update archive URL. Ricardo Wurmus
2018-10-21Merge branch 'master' into core-updatesMarius Bakke
2018-10-18gnu: Use pypi.org....<pypi.io> redirects to <pypi.org>. * guix/build-system/python.scm (pypi-uri): Replace pypi.io with pypi.org. * guix/import/pypi.scm (pypi-url?): Likewise. * tests/pypi.scm: Likewise. Leo Famulari
2018-10-07Merge branch 'master' into core-updatesLeo Famulari
2018-10-07build-system/glib-or-gtk: Build 'in-source' by default....* guix/build-system/glib-or-gtk.scm (glib-or-gtk-build): Change to 'out-of-source? #f'. * gnu/packages/audio.scm (audacity)[arguments]: Use the default 'out-of-source?' setting. * gnu/packages/libreoffice.scm (libreoffice): Likewise. Leo Famulari
2018-10-05Merge branch 'master' into core-updatesMarius Bakke
2018-10-01build-system: haskell: Add #:cabal-revision argument....Add a #:cabal-revision argument for specifying which Cabal file revision from Hackage should be used. * guix/build-system/haskell.scm (source-url->revision-url): New function. (lower): Accept a cabal-revision keyword argument, convert it to an origin record, and add it to the resulting bag's host-inputs. (haskell-build): Pass the cabal-revision input to the builder as an argument. * guix/build/haskell-build-system.scm (patch-cabal-file): New phase. (%standard-phases): Add it. Timothy Sample
2018-09-13Merge branch 'master' into core-updatesLeo Famulari
2018-09-10Adjust all users of (gnu packages ldc) to use (gnu packages dlang)....This is a followup to commit 98d6543f86d01486c2f6e808eedd97c601ba3e7a. * gnu/packages/bioinformatics.scm, guix/build-system/dub.scm: Adjust accordingly. Leo Famulari
2018-08-25Merge branch 'staging' into core-updatesMarius Bakke
2018-08-22build-system/meson: Strip RUNPATH and remove PatchELF traces....* guix/build-system/meson.scm (%meson-build-system-modules): Don't import (guix build rpath). * guix/build/meson-build-system.scm (fix-runpath): Rename to ... (shrink-runpath): ... this. Update docstring. Remove AUGMENT-RPATH calls and related code. (%standard-phases): Add 'shrink-runpath'. Marius Bakke
2018-08-21build-system/asdf: Fix typo in "dependency"....* guix/build-system/asdf.scm (default-lisp): Fix typo in "dependency". Pierre Neidhardt
2018-07-28Merge branch 'master' into stagingMarius Bakke
2018-07-28build-system/meson: Remove RUNPATH workarounds....* guix/build-system/meson.scm (default-patchelf): Remove. (lower)[build-inputs]: Remove PATCHELF. (meson-build): Don't delete 'fix-runpath' phase on armhf. * guix/build/meson-build-system.scm (configure): Add "--c_link_args" and "-cpp_link_args" instead of setting LDFLAGS. (meson-build): Don't apply 'fix-runpath' phase. Marius Bakke
2018-07-23build-system: Add 'guile-build-system'....* guix/build-system/guile.scm, guix/build/guile-build-system.scm: New files. * Makefile.am (MODULES): Add them. * doc/guix.texi (Build Systems): Document 'guile-build-system'. Ludovic Courtès
2018-07-02build-system/meson: Really skip the 'fix-runpath' phase on armhf....This follows up commit d5b5a15a4046362377f1a45d466b43bb6e93d4f which doesn't work because %current-system etc expands before the actual build. Fixes <https://bugs.gnu.org/31719>. * guix/build-system/meson.scm (meson-build)[builder]: Compare against the already existing "system" variable rather than (%current-system). Marius Bakke
2018-06-18build-system/r: Accept #:r argument....* guix/build-system/r.scm (lower): Add #:r to private-keywords. Ricardo Wurmus
2018-06-05build-system/r: Update to Bioconductor 3.7....This is a follow-up to 41f17554d88795bf35fbfc3e05301a6d2f64cca0. * guix/build-system/r.scm (bioconductor-uri): Update to version 3.7. Ricardo Wurmus
2018-05-10gnu: android-make-stub: Update to 0.6.0....* gnu/packages/android.scm (android-make-stub): Update to 0.6.0. * guix/build-system/android-ndk.scm (android-ndk-build): Modify. (lower): Modify. Danny Milosavljevic
2018-05-10gnu: Add android-googletest....* gnu/packages/android.scm (android-googletest): New variable. * guix/build-system/android-ndk.scm (android-ndk-build): Use it. Danny Milosavljevic
2018-05-10build-system: android-ndk: Support unit tests....* guix/build-system/android-ndk.scm (android-ndk-build): Add googletest. * guix/build/android-ndk-build-system.scm (check): Check whether tests are enabled. Run root-level tests as well. Danny Milosavljevic
2018-05-09build: Add the Android NDK build-system....* guix/build-system/android-ndk.scm: New file. * guix/build/android-ndk-build-system.scm: New file. * Makefile.am: Add them. Danny Milosavljevic
2018-04-20build-system: emacs: Add improved check phase....* guix/build-system/emacs.scm (emacs-build): Add #:test-command keyword argument. Remove #:configure-flags and #:test-target keyword arguments. * guix/build/emacs-build-system.scm (check): New procedure. (%standard-phases): Register check phase after the build phase. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net> Maxim Cournoyer
2018-03-30gnu: rust: Update rust to 1.24.1....* gnu/packages/rust.scm (rust-bootstrap): Freeze bootstrap version to 1.22.1. Reorganize bootstrap binaries to match new "rust" package structure with two ouputs "out" with Rust compiler and "cargo" with Cargo package manager. Replace all "system*" by "invoke". (rust-1.23): Rename "rustc" to "rust". Update sha256 for tarball. Add cargo related dependencies. Install "cargo" as separate "rust" output. Remove substitutes for parts that were fixed in "rustc" source code. Install documentation to separate "doc" output. Update configuration according to changes in "rustc" source code. Replace all "system*" by "invoke". (rust): Create package for 1.24.1 rust release based on rust-1.23 release. * guix/build-system/cargo.scm (default-rust): Replace "default-cargo" and "default-rustc" functions with "default-rust" function. (cargo-build-system): Take only one package as "rust" source. Use "rustc" of default output of "rust" package, use "cargo" as "cargo" output of "rust" package. Nikolai Merinov
2018-03-20Revert "build-system/meson: Use 'target-arm32?' for armhf-linux case."...This requires adding (guix utils) to the build inputs, and causes too many rebuilds for now. This reverts commit 24a2e9172a2d8970d57865c6130f2184385183a3. Marius Bakke
2018-03-19build-system/meson: Use 'target-arm32?' for armhf-linux case....* guix/build-system/meson.scm (lower, meson-build): Replace armhf-linux detection with 'target-arm32?' macro. Efraim Flashner
2018-03-18Merge branch 'master' into stagingMarius Bakke
2018-03-12build-system/meson: Skip the 'fix-runpath' phase on armhf....* guix/build-system/meson.scm (lower): Remove DEFAULT-PATCHELF from inputs on armhf. (meson-build): Ignore the 'fix-runpath' phase when building for arm systems. Marius Bakke
2018-03-12build-system: minify: Do not import (ice-9 popen) in the build environment....The (ice-9 popen) module should not be added to the imported-modules here, because that depends on the Guile that is used on the host side. * guix/build-system/minify.scm (%minify-build-system-modules): Remove import of (ice-9 popen). Ricardo Wurmus
2018-02-28build-system/trivial: Add support for #:allowed-references....* guix/build-system/trivial.scm (lower): Add #:allowed-references and keep it in the 'arguments' field. (trivial-build): Add #:allowed-references. Add 'canonicalize-reference'. Pass #:allowed-references to 'build-expression->derivation'. (trivial-cross-build): Likewise. * tests/packages.scm ("trivial with #:allowed-references"): New test. Ludovic Courtès
2018-02-09Merge branch 'master' into core-updatesMark H Weaver
2018-02-05emacs-build-system: Reinstate the check phase....* guix/build/emacs-build-system.scm (%standard-phases): Reinstate the check phase from the gnu-build-system. * guix/build-system/emacs.scm (emacs-build)[tests?]: But do not enable it by default. [parallel-tests?]: Add argument. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Maxim Cournoyer
2018-01-01build-system/glib-or-gtk: Don't generate 'icon-theme.cache'....* guix/build-system/glib-or-gtk.scm (glib-or-gtk-build): Don't generate 'icon-theme.cache'. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Danny Milosavljevic
2017-12-21build-system/gnu: Check whether the cross-libc has a "static" output....This is a followup to 614fffe4270cef308573a6d9cef650f3972875af, which broke cross-compilation to i686-w64-mingw32. * guix/build-system/gnu.scm (standard-cross-packages): Add "cross-libc:static" only when LIBC has a "static" output. Ludovic Courtès
2017-12-20build-system/gnu: Add the "static" output of libc in cross environments....Fixes a regression whereby the host libc.a would be missing when cross-compiling. This is a followup to commit 6dff905e51202bbdebbad8811b6509584d12a796. * guix/build-system/gnu.scm (standard-cross-packages): Add the "cross-libc:static". Ludovic Courtès
2017-12-19Merge branch 'master' into core-updatesMarius Bakke
2017-12-10build-system/asdf: Use 'mlambda'....* guix/build-system/asdf.scm (package-with-build-system): Use 'mlambda' instead of 'memoize'. Ludovic Courtès
2017-12-05Merge branch 'master' into core-updatesMarius Bakke
2017-11-30build-system: Add scons-build-system....* guix/build-system/scons.scm: New file. * guix/build/scons-build-system.scm: New file. * Makefile.am (MODULES): Register them. * doc/guix.texi (Build Systems): Add scons-build-system. Arun Isaac
2017-11-19Merge branch 'master' into core-updatesMarius Bakke
2017-11-17build-system/go: Don't let Go executables refer to the Go compiler....* guix/build/go-build-system.scm (remove-store-reference, remove-go-references): New procedures. (%standard-phases): Add 'remove-go-references' phase. * guix/build-system/go.scm (go-build): Add allow-go-reference? key. Leo Famulari
2017-11-08build-system/gnu: Add 'install-license-files' phase....Suggested by Dave Love <fx@gnu.org>. * guix/build-system/gnu.scm (%license-file-regexp): New variable. (gnu-build): Add #:license-file-regexp and use it. (gnu-cross-build): Likewise. * guix/build/gnu-build-system.scm (%license-file-regexp): New variable. (install-license-files): New procedure. (%standard-phases): Add it. Ludovic Courtès
2017-11-07guix: Add archive support for bioconductor-uri....* guix/build-system/r.scm (bioconductor-uri): Also return the archive URL. * guix/import/cran.scm (latest-bioconductor-release, fetch-description): Adjust because bioconductor-uri now returns a list. Ricardo Wurmus
2017-10-24build-system/go: Parameterize installing the source code....* guix/build-system/go.scm (go-build): Add install-source? key. * guix/build/go-build-system.scm (install-source): Check if install-source? is true. Leo Famulari
2017-10-21Use HTTPS for bioconductor.org....* doc/guix.texi (Invoking guix import, Invoking guix refresh): Use HTTPS for bioconductor.org URLs. * gnu/packages/bioinformatics.scm (r-annotate, r-geneplotter, r-genefilter) (r-deseq2, r-dexseq, r-annotationforge, r-rbgl, r-gseabase, r-category) (r-gostats, r-shortread, r-biocgenerics, r-biocinstaller, r-biocviews) (r-biocstyle, r-bioccheck, r-s4vectors, r-iranges, r-genomeinfodbdata) (r-genomeinfodb, r-xvector, r-genomicranges, r-biobase, r-annotationdbi) (r-biomart, r-biocparallel, r-biostrings, r-rsamtools, r-delayedarray) (r-summarizedexperiment, r-genomicalignments, r-rtracklayer) (r-genomicfeatures, r-graph, r-topgo, r-bsgenome, r-impute, r-seqpattern) (r-seqlogo, r-motifrg, r-bamsignals, r-mutationalpatterns, r-tximport) (r-rhdf5, r-chipseq, r-sva, r-affy, r-vsn, r-mzid, r-msnid) (r-interactivedisplaybase, r-annotationhub)[home-page]: Likewise. * gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene) (r-go-db, r-bsgenome-hsapiens-1000genomes-hs37d5, r-org-hs-eg-db) (r-org-ce-eg-db, r-org-dm-eg-db, r-org-mm-eg-db) (r-bsgenome-hsapiens-ucsc-hg19, r-bsgenome-mmusculus-ucsc-mm9) (r-bsgenome-mmusculus-ucsc-mm10, r-txdb-mmusculus-ucsc-mm10-knowngene) (r-bsgenome-celegans-ucsc-ce6, r-bsgenome-celegans-ucsc-ce10) (r-bsgenome-dmelanogaster-ucsc-dm3, r-copyhelper)[source, home-page]: Likewise. * gnu/packages/statistics.scm (r-rcurl)[source]: Likewise. * guix/build-system/r.scm (bioconductor-uri): Likewise. * guix/import/cran.scm (%cran-url, bioconductor-package?) (bioconductor-data-package?, bioconductor-experiment-package?): Likewise. Tobias Geerinckx-Rice
2017-10-12build: Add the Go build system....* guix/build-system/go.scm, guix/build/go-build-system.scm: New files. * Makefile.am (MODULES): Add new files. * doc/guix.texi (Build Systems): Document the go-build-system. Leo Famulari