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2019-12-17swh: Fix API call for getting origin.Björn Höfling
When using the archival linter, git origins already in the archive where not recognized due to an API change and where repeatedly asked for archival. This is fixed here. * guix/swh.scm (lookup-origin): Fix API URI for getting origin. (<origin>): Fix comment with API URI example.
2019-12-15guix: Upgrade to Bioconductor 3.10.Ricardo Wurmus
* guix/build-system/r.scm (bioconductor-uri): Switch to version 3.10. * guix/import/cran.scm (%bioconductor-version): Same.
2019-12-15base64: Do not use (rnrs).Ludovic Courtès
* guix/base64.scm: Remove #:use-module clauses for (rnrs) and (srfi srfi-13). Add other #:use-module clauses. (fxbit-field): Define as an alias for 'bit-field. (fx=?, fx+, mod): New aliases. (assert): New macro.
2019-12-15challenge: Fix type mismatch when comparing to a local hash.Ludovic Courtès
* guix/scripts/challenge.scm (call-with-mismatches)[narinfo1]: When LOCAL-HASH is true, call 'narinfo-hash->sha256' and use 'bytevector=?' instead of 'string=?'.
2019-12-14import: cran: Recognize LGPL 2.1+.Ricardo Wurmus
* guix/import/cran.scm (string->license): Add case for lgpl2.1+.
2019-12-13import: utils: Update docstring of 'recursive-import'.Ludovic Courtès
This is a followup to 70a8e13277d4a44b89dd9ee2290b98105f0235f1. * guix/import/utils.scm (recursive-import): Update docstring.
2019-12-13emacs-build-system: Ensure the core libraries appear last in the load path.Maxim Cournoyer
Fixes bug #38568 (see: https://bugs.gnu.org/38568). * guix/build/emacs-build-system.scm (add-source-to-load-path): Ensure the core libraries appear last in the load path. Reported-by: Jelle Licht <jlicht@fsfe.org>
2019-12-12challenge: Support "--diff=diffoscope".Ludovic Courtès
* guix/scripts/challenge.scm (call-with-nar): New procedure. (narinfo-contents): Express in terms of 'call-with-nar'. (call-with-mismatches, report-differing-files/external): New procedures. (%diffoscope-command): New variable. (%options): Support "diffoscope" and a string starting with "/". * tests/challenge.scm (call-mismatch-test): New procedure. ("differing-files"): Rewrite in terms of 'call-mismatch-test'. ("call-with-mismatches"): New test. * doc/guix.texi (Invoking guix challenge): Document it.
2019-12-12challenge: Add "--diff".Ludovic Courtès
* guix/scripts/challenge.scm (dump-port*): New variable. (archive-contents, store-item-contents, narinfo-contents) (differing-files, report-differing-files): New procedures. (summarize-report): Add #:report-differences and call it. (show-help, %options): Add "--diff". (%default-options): Add 'difference-report' key. (report-differing-files): Parameterize CURRENT-TERMINAL-COLUMNS and pass #:report-differences to 'summarize-report'. * guix/tests/http.scm (%local-url): Add optional argument. (call-with-http-server): Fix docstring typo. * tests/challenge.scm (query-path-size, make-narinfo): New procedures. ("differing-files"): New test. * doc/guix.texi (Invoking guix challenge): Document "--diff".
2019-12-12progress: Add 'progress-report-port'.Ludovic Courtès
* guix/scripts/substitute.scm (progress-report-port): Move to... * guix/progress.scm (progress-report-port): ... here. New procedure.
2019-12-12serialization: Remove unused procedure.Ludovic Courtès
* guix/serialization.scm (write-contents): Remove.
2019-12-12challenge: Report the best narinfo URI.Ludovic Courtès
* guix/scripts/substitute.scm (select-uri): Rename to... (narinfo-best-uri): ... this, and make public. Update callers. * guix/scripts/challenge.scm (summarize-report): Use 'narinfo-best-uri' instead of (first (narinfo-uris ...)).
2019-12-12guix archive: Add '--list'.Ludovic Courtès
* guix/scripts/archive.scm (show-help, %options): Add '--list'. (list-contents): New procedure. (guix-archive): Honor the '--list' option. * tests/guix-archive.sh: Test it. * doc/guix.texi (Invoking guix archive): Document it.
2019-12-12serialization: Add 'fold-archive'.Ludovic Courtès
* guix/serialization.scm (read-contents): Remove. (read-file-type, fold-archive): New procedures. (restore-file): Rewrite in terms of 'fold-archive'. * tests/nar.scm ("write-file-tree + fold-archive") ("write-file-tree + fold-archive, flat file"): New tests.
2019-12-11import: crate: Better handle license expressions.Brice Waegeneire
* guix/import/crate.scm (%dual-license-rx): Removed function. (crate->guix-package): Handle most of the multi-licensing cases. * tests/crate.scm (licenses): Add tests for some licenses. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2019-12-11import: utils: 'recursive-import' returns a list rather than a stream.Ludovic Courtès
* guix/import/utils.scm (recursive-import): Remove 'list->stream' call. * guix/scripts/import/cran.scm (guix-import-cran): Remove 'stream->list' call. * guix/scripts/import/crate.scm (guix-import-crate): Likewise. * guix/scripts/import/elpa.scm (guix-import-elpa): Likewise. * guix/scripts/import/gem.scm (guix-import-gem): Likewise. * guix/scripts/import/hackage.scm (guix-import-hackage): Likewise. * guix/scripts/import/opam.scm (guix-import-opam): Likewise. * guix/scripts/import/pypi.scm (guix-import-pypi): Likewise. * guix/scripts/import/stackage.scm (guix-import-stackage): Likewise. * tests/gem.scm ("gem-recursive-import"): Likewise. * tests/import-utils.scm ("recursive-import"): Likewise. Co-authored-by: Brian Leung <bkleung89@gmail.com>
2019-12-11import: utils: 'recursive-import' returns packages in topological order.Ludovic Courtès
* guix/import/utils.scm (topological-sort): New procedure. (recursive-import): Rewrite to use it. * tests/import-utils.scm ("recursive-import"): New test. * guix/import/cran.scm (cran->guix-package): Always return two values. * guix/scripts/import/cran.scm (guix-import-cran): Remove 'reverse' call on 'cran-recursive-import' result. * guix/scripts/import/crate.scm (guix-import-crate): Likewise. * guix/scripts/import/elpa.scm (guix-import-elpa): Likewise. * guix/scripts/import/gem.scm (guix-import-gem): Likewise. * guix/scripts/import/hackage.scm (guix-import-hackage): Likewise. * guix/scripts/import/opam.scm (guix-import-opam): Likewise. * guix/scripts/import/pypi.scm (guix-import-pypi): Likewise. * guix/scripts/import/stackage.scm (guix-import-stackage): Likewise. * tests/gem.scm ("gem-recursive-import"): Change the order of package expressions accordingly.
2019-12-10profiles: Use 'getpwuid' when $USER and $LOGNAME are undefined.Ludovic Courtès
Reported by YOANN P <yoann_mac_donald@hotmail.com>. * guix/profiles.scm (%profile-directory): Fall back to 'getpwuid' when "USER" and "LOGNAME" are undefined.
2019-12-10pack: Clarify the /bin/sh requirement for Singularity.Ludovic Courtès
* guix/scripts/pack.scm (squashfs-image)[symlinks*]: New variable. [build]: Use it instead of SYMLINKS. (guix-pack): Emit a warning and a hint when "bash" and "bash-minimal" are missing and PACK-FORMAT is 'squashfs. * doc/guix.texi (Invoking guix pack): Document the /bin/sh requirement for Singularity.
2019-12-08lint: Add '--load-path' option.zimoun
* guix/scripts/lint.scm (%options): Add '--load-path' option. * doc/guix.texi: Document it. * tests/guix-lint.sh: Test it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-12-08emacs-build-system: Move the source directory to the start of EMACSLOADPATH.Maxim Cournoyer
Fixes issue #38479 (see: https://bugs.gnu.org/38479). * guix/build/emacs-build-system.scm (add-source-to-load-path): Move the source directory to the start of the EMACSLOADPATH environment variable. Reported-by: Diego Nicola Barbato <dnbarbato@posteo.de>
2019-12-08emacs-build-system: Make the order of the phases more clear.Maxim Cournoyer
* guix/build/emacs-build-system.scm (%standard-phases): Re-arrange to explicit the ordering of phases.
2019-12-07build-system: qt: Fix output missing in wrapped variables.Hartmut Goebel
* guix/build/qt-build-system .scm (handle-output): Use directory of output, not its name.
2019-12-07file-systems: Add support for 'strict-atime' and 'lazy-time' flags.Guillaume Le Vaillant
* guix/build/syscalls.scm (MS_LAZYTIME): New variable. * gnu/build/file-systems.scm (mount-flags->bit-mask): Add match rules for 'strict-atime' and 'lazy-time'. * doc/guix.texi (File Systems): Add 'strict-atime' and 'lazy-time' to the list of supported flags. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-12-07guix system: Add "describe" action.Ludovic Courtès
* guix/scripts/system.scm (show-help): Add "describe". (process-command): Handle it. (guix-system): Likewise. * doc/guix.texi (Invoking guix system): Document it.
2019-12-07guix system: "list-generations" displays provenance info.Ludovic Courtès
* guix/scripts/pull.scm (channel-commit-hyperlink): Export. * guix/scripts/system.scm (display-system-generation) [display-channel]: New procedure. Read the "provenance" file of GENERATION and display channel info and the configuration file name when available.
2019-12-07guix system: Use 'provenance-service-type', add "--save-provenance".Ludovic Courtès
* guix/scripts/system.scm (show-help, %options): Add "--save-provenance". (process-action): Define 'save-provenance?' and 'transform'; call 'transform' on the OS. * doc/guix.texi (Invoking guix system): Document it under 'reconfigure'. (Service Reference): Mention that 'provenance-service-type' is automatically added by 'reconfigure' & 'init'.
2019-12-07derivations: Add 'derivation-input-fold'.Ludovic Courtès
* guix/derivations.scm (derivation-input-fold): New procedure. (substitution-oracle)[closure]: Rewrite in terms of 'derivation-input-fold'. * tests/derivations.scm ("derivation-input-fold"): New test.
2019-12-05gnu: Really move lisp libraries to lisp-xyz, uglify-js to javascript and ↵Pierre Neidhardt
stumpwm to wm. * gnu/local.mk: Include lisp-xyz.scm. * gnu/packages/lisp-xyz.scm: New file. * gnu/packages/lisp.scm: Move all lisp libraries to lisp-xyz.scm, uglify-js to javascript.scm and stumpwm to wm.scm. * gnu/packages/javascript.scm: Add uglify-js. * gnu/packages/wm.scm: Add stumpwm. * gnu/packages/bioinformatics.scm: Find uglify-js in javascript.scm. * gnu/packages/machine-learning.scm: Depend on lisp-xyz.scm instead of lisp.scm. * gnu/packages/web.scm: Find uglify-js in javascript.scm. * gnu/packages/web-browsers.scm: Depend on lisp-xyz.scm instead of lisp.scm. * guix/build-system/minify.scm (default-uglify-js): Find uglify-js in javascript module instead of lisp.
2019-12-05Revert "gnu: Properly move lisp libraries to lisp-xyz, uglify-js to ↵Tobias Geerinckx-Rice
javascript and stumpwm to wm." This reverts commit ac1ee30f4f7f9d0ae2a655676b0e8b9eb90a35dd, which still breaks ‘guix pull’.
2019-12-05Revert "build-system/linux-module: Accept a #:make-flags keyword."Efraim Flashner
I should've tested this better before pushing the commit. This reverts commit fabd4900d8fb739a55e2dff76dee3a29b2a90bb1.
2019-12-05gnu: Properly move lisp libraries to lisp-xyz, uglify-js to javascript and ↵Pierre Neidhardt
stumpwm to wm. * gnu/local.mk: Include lisp-xyz.scm. * gnu/packages/lisp-xyz.scm: New file. * gnu/packages/lisp.scm: Move all lisp libraries to lisp-xyz.scm, uglify-js to javascript.scm and stumpwm to wm.scm. * gnu/packages/javascript.scm: Add uglify-js. * gnu/packages/wm.scm: Add stumpwm. * gnu/packages/bioinformatics.scm: Find uglify-js in javascript.scm. * gnu/packages/machine-learning.scm: Depend on lisp-xyz.scm instead of lisp.scm. * gnu/packages/web.scm: Find uglify-js in javascript.scm. * gnu/packages/web-browsers.scm: Depend on lisp-xyz.scm instead of lisp.scm. * guix/build-system/minify.scm (default-uglify-js): Find uglify-js in javascript module instead of lisp.
2019-12-04Merge branch 'staging'Marius Bakke
2019-12-04ssh: 'open-ssh-session' can be passed the expected host key.Ludovic Courtès
* guix/ssh.scm (open-ssh-session): Add #:host-key parameter. Pass #:knownhosts to 'make-session'. When HOST-KEY is true, call 'authenticate-server*' instead of 'authenticate-server'.
2019-12-04ssh: Always authenticate the server [security fix].Ludovic Courtès
Until now, users of 'open-ssh-session', including "guix deploy" and "GUIX_DAEMON_SOCKET=ssh://…" (but not "guix offload"), would not authenticate the SSH server they're talking to. * guix/ssh.scm (open-ssh-session): Call 'authenticate-server'.
2019-12-04ssh: Add 'authenticate-server*' and use it for offloading.Ludovic Courtès
* guix/scripts/offload.scm (host-key->type+key): Remove. (open-ssh-session): Replace server authentication code with a call to 'authenticate-server*'. * guix/ssh.scm (host-key->type+key, authenticate-server*): New procedures.
2019-12-04substitute: Remove unused procedure.Ludovic Courtès
This became unused with commit a9468b422b6df2349a3f4d1451c9302c3d77011b. * guix/scripts/substitute.scm (assert-valid-signature): Remove.
2019-12-04build: emacs-build-system: Unify the installation directory.Maxim Cournoyer
This change aims to reduce the length of the EMACSLOADPATH environment variable, which was found to cause issues such as <https://bugs.gnu.org/38309>. It should also enable discovery of newly installed packages without refreshing the session's EMACSLOADPATH of the user profile (e.g., when launching Emacs from the desktop manager application launcher), as discussed in <https://bugs.gnu.org/38309>. * guix/build/emacs-build-system.scm (%legacy-install-suffix): Rename to... (%install-dir): ...this. (%install-suffix): Remove variable. (build): Adjust installation target directory. (patch-el-files): Likewise. (install): Likewise. (move-doc): Likewise. (make-autoloads): Likewise. Signed-off-by: Clément Lassieur <clement@lassieur.org>
2019-12-04build-system/linux-module: Accept a #:make-flags keyword.Tobias Geerinckx-Rice
Fixes bug#37882. * guix/build-system/linux-module.scm (linux-module-build): Accept a MAKE-FLAGS argument. <builder>: Pass it on.
2019-12-02lint: archival: Gracefully handle network failures.Ludovic Courtès
* guix/lint.scm (check-archival): Wrap re-throw in 'with-networking-fail-safe'.
2019-12-01guix: Add the 'qt' build system.Hartmut Goebel
* guix/build-system/qt.scm, guix/build/qt-build-system.scm: New files. * Makefile.am (MODULES): Add them. * doc/guix.texi (Buiild systems): Add the new build system.
2019-12-01scripts: system: Add --target option.Mathieu Othacehe
* guix/scripts/system.scm (%options): Add target option, (%default-options): ditto, (process-action): Rename existing target variable to target-file and pass new target variable to run-with-store procedure.
2019-11-30gexp: 'local-file' properly resolves non-literal relative file names.Ludovic Courtès
* guix/gexp.scm (local-file): Distinguish the case where FILE is a literal string and when it's not. Add a clause for when FILE is not a literal string. * tests/gexp.scm ("local-file, non-literal relative file name"): New test. * doc/guix.texi (G-Expressions): Update accordingly.
2019-11-30guix: import: Fix importing dune project.Julien Lepiller
* guix/import/opam.scm: Detect dune projects from dependencies, then filter dune from dependencies.
2019-11-30guix: import: Fix opam importer.Julien Lepiller
* guix/import/opam.scm: Allow line breaks in strings.
2019-11-29ui: 'with-profile-lock' keeps going upon ENOLCK.Ludovic Courtès
* guix/build/syscalls.scm (call-with-file-lock/no-wait): Really pass ARGS to HANDLER. Return #f when HANDLER is called. * guix/ui.scm (profile-lock-handler): Emit a mere warning upon ENOLCK.
2019-11-29ui: Factorize 'with-profile-lock'.Ludovic Courtès
* guix/ui.scm (profile-lock-handler, profile-lock-file): New procedures. (with-profile-lock): New macro. * guix/scripts/package.scm (process-actions): Use 'with-profile-lock' instead of 'with-file-lock/no-wait'. * guix/scripts/pull.scm (guix-pull): Likewise.
2019-11-28pull, describe: Emit hyperlinks for commit identifiers.Ludovic Courtès
* guix/scripts/pull.scm (%vcs-web-views): New variable. (channel-commit-hyperlink): New procedure. (display-news-entry): Add 'channel' parameter. When 'supports-hyperlinks?' returns true, call 'channel-commit-hyperlink'. (display-profile-content): Likewise, and define CHANNEL. (display-channel-specific-news): Pass CHANNEL to 'display-news-entry'. * guix/ui.scm (hyperlink): Make public.
2019-11-28Merge branch 'master' into stagingMarius Bakke
2019-11-28ui: 'display-generation' emits a hyperlink for the generation.Ludovic Courtès
* guix/ui.scm (supports-hyperlinks?): Make 'port' optional. (display-generation): Use 'file-hyperlink' for the heading when 'supports-hyperlinks?' returns true.
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