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2020-06-15download: Remove usa-mirror.go-parts.com mirror.Tobias Geerinckx-Rice
It incorrectly redirects 404s (at least) to the commercial home page. * guix/download.scm (%mirrors): Remove usa-mirror.go-parts.com URLs.
2020-06-15ci: Fix buildproducts reading.Mathieu Othacehe
This is a follow-up of 4e05bbb093a17145fcabd48ea1d2c9cd7559084d. * guix/ci.scm (<build>)[products]: Test for vector type, as products can be "null".
2020-06-15ci: Add job option to "latest-builds".Mathieu Othacehe
* guix/ci.scm (latest-builds): Add "job" option.
2020-06-15ci: Add build products support.Mathieu Othacehe
* guix/ci.scm (<build-product>): New json mapping, (<build)[products]: new field.
2020-06-14guix repl: Add script execution.Konrad Hinsen
* guix/scripts/repl.scm: Add filename options for script execution. * doc/guix.texi (Invoking guix repl): Document it. * tests/guix-repl.sh: Test it. * Makefile.am: (SH_TESTS): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-06-14scripts: system: Fix "init" command.Mathieu Othacehe
This is a follow-up of 7ca533c7237622d70b423033c4506217d9ce4014. The introduced "target" variable is shadowing the target argument. * guix/scripts/system.scm (perform-action): Rename "target" variable to "target*".
2020-06-14lint: Add 'check-for-collisions' checker.Ludovic Courtès
Suggested by Edouard Klein <edk@beaver-labs.com>. * guix/profiles.scm (check-for-collisions): Export. * guix/lint.scm (check-profile-collisions): New procedure. (%local-checkers): Add 'profile-collisions' checker. * tests/lint.scm ("profile-collisions: no warnings") ("profile-collisions: propagated inputs collide") ("profile-collisions: propagated inputs collide, store items"): New tests. * doc/guix.texi (Invoking guix lint): Document it.
2020-06-14profiles: Fix pathological performance of 'manifest-transitive-entries'.Ludovic Courtès
For packages with lots of propagated inputs, 'manifest-transitive-entries', as called from 'check-for-collisions', would exhibit pathological behavior. For example, "guix install cl-ana" wouldn't complete in 1mn; now, it's down to 20s. The issue was that manifest entries would never be 'equal?' due to the delayed field in <manifest-entry>. * guix/profiles.scm (manifest-transitive-entries): Use a vhash instead of a set. Use 'manifest-entry=?' instead of 'equal?' when checking for equality.
2020-06-14ui: Set 'LESS' environment variable unconditionally.Ludovic Courtès
Fixes <https://bugs.gnu.org/41811>. Reported by Lars-Dominik Braun <lars@6xq.net>. * guix/ui.scm (call-with-paginated-output-port): Remove (getenv "LESS") call.
2020-06-13Merge branch 'staging'Marius Bakke
2020-06-13image: Make 'find-image' non-monadic.Jan (janneke) Nieuwenhuizen
* gnu/system/image.scm (find-image): Make non-monadic. Add 'target' parameter. * gnu/tests/install.scm (run-install): Update caller, passing (%current-target-system). * guix/scripts/system.scm (perform-action): Likewise.
2020-06-13guix: Update to Bioconductor 3.11.Ricardo Wurmus
* guix/build-system/r.scm (bioconductor-uri): Use new URL. * guix/import/cran.scm (%bioconductor-version): Update to 3.11.
2020-06-12lint: check-patch-file-names: Use origin-actual-file-name.Christopher Baines
This avoids crashes for the patch-file-names checker where a <origin> is used for a patch, but without a value for the file-name field. This is currently the case with the bash package. * guix/lint.scm (check-patch-file-names): Change origin-file-name to origin-actual-file-name.
2020-06-12git-authenticate: Disallow SHA1 (and MD5) signatures.Ludovic Courtès
* guix/git-authenticate.scm (commit-signing-key): Add #:disallowed-hash-algorithms and honor it. (authenticate-commit)[recent-commit?]: New variable. Pass #:disallowed-hash-algorithms to 'commit-signing-key'. * tests/git-authenticate.scm ("signed commits, SHA1 signature"): New test.
2020-06-12download: Add more apache mirrors.Efraim Flashner
* guix/download.scm (%mirrors): Add more apache mirrors.
2020-06-11guix: lint: Support origins in check-patch-file-names.Chris Marusich
* guix/lint.scm (check-patch-file-names)[starts-with-package-name?]: New procedure, extracted from the existing logic. Using it, add a clause to the match-lambda to handle origin records.
2020-06-11Merge branch 'master' into stagingMarius Bakke
2020-06-11packages: 'package-grafts' returns grafts for all the relevant outputs.Ludovic Courtès
Fixes <https://bugs.gnu.org/41796>. Reported by Jakub Kądziołka <kuba@kadziolka.net>. * guix/packages.scm (input-graft): Add 'output' parameter and honor it. Add OUTPUT to the cache key. (input-cross-graft): Likewise. (fold-bag-dependencies): Operate on inputs instead of nodes. Turn VISITED into a vhash instead of a set. Pass PROC HEAD and OUTPUT instead of just HEAD. (bag-grafts): Adjust accordingly. * tests/packages.scm ("package-grafts, dependency on several outputs"): New test.
2020-06-10database: separate transaction-handling and retry-handling.Caleb Ristvedt
Previously call-with-transaction would both retry when SQLITE_BUSY errors were thrown and do what its name suggested (start and rollback/commit a transaction). This changes it to do only what its name implies, which simplifies its implementation. Retrying is provided by the new call-with-SQLITE_BUSY-retrying procedure. * guix/store/database.scm (call-with-transaction): no longer restarts, new #:restartable? argument controls whether "begin" or "begin immediate" is used. (call-with-SQLITE_BUSY-retrying, call-with-retrying-transaction, call-with-retrying-savepoint): new procedures. (register-items): use call-with-retrying-transaction to preserve old behavior. * .dir-locals.el (call-with-retrying-transaction, call-with-retrying-savepoint): add indentation information.
2020-06-10database: ensure update-or-insert is run within a transactionCaleb Ristvedt
update-or-insert can break if an insert occurs between when it decides whether to update or insert and when it actually performs that operation. Putting the check and the update/insert operation in the same transaction ensures that the update/insert will only succeed if no other write has occurred in the middle. * guix/store/database.scm (call-with-savepoint): new procedure. (update-or-insert): use call-with-savepoint to ensure the read and the insert/update occur within the same transaction.
2020-06-10database: rewrite query procedures in terms of with-statement.Caleb Ristvedt
Most of our queries would fail to finalize their statements properly if sqlite returned an error during their execution. This resolves that, and also makes them somewhat more concise as a side-effect. This also makes some small changes to improve certain queries where behavior was strange or overly verbose. * guix/store/database.scm (call-with-statement): new procedure. (with-statement): new macro. (last-insert-row-id, path-id, update-or-insert, add-references): rewrite to use with-statement. (update-or-insert): factor last-insert-row-id out of the end of both branches. (add-references): remove pointless last-insert-row-id call. * .dir-locals.el (with-statement): add indenting information.
2020-06-10database: work around guile-sqlite3 bug preventing statement resetCaleb Ristvedt
guile-sqlite3 provides statement caching, making it unnecessary for sqlite to keep re-preparing statements that are frequently used. Unfortunately it doesn't quite emulate the semantics of sqlite_finalize properly, because it doesn't cause a commit if the statement being finalized is the last "active" statement (see https://notabug.org/guile-sqlite3/guile-sqlite3/issues/12). We work around this by wrapping sqlite-finalize with our own version that ensures sqlite-reset is called, which does The Right Thing™. * guix/store/database.scm (sqlite-finalize): new procedure that shadows the sqlite-finalize from (sqlite3).
2020-06-09import: stackage: Fix typo.Tobias Geerinckx-Rice
* guix/import/stackage.scm (latest-lts-release): Fix spelling of ‘if’.
2020-06-09import: stackage: Fix typo.Marius Bakke
* guix/import/stackage.scm (latest-lts-release): Fix spelling of "included".
2020-06-09store: Use buffered I/O for all protocol writesLars-Dominik Braun
* guix/store.scm (run-gc) Use buffered output port. (export-path) Same. (add-file-tree-to-store) Same. (set-build-options): Same. Add explicit flush. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-06-09git-authenticate: 'commit-authorized-keys' properly handles orphan commits.Ludovic Courtès
Previously it would trigger a wrong-number-of-arguments error for 'lset-intersection'. * guix/git-authenticate.scm (commit-authorized-keys): Add case for when 'commit-parents' returns the empty list.
2020-06-09git: 'commit-difference' really excludes the ancestors of #:excluded.Ludovic Courtès
* guix/git.scm (commit-difference): Initialize VISITED to the closure of OLD and EXCLUDED, as written in the docstring. * tests/git.scm ("commit-difference, excluded commits"): Adjust accordingly.
2020-06-08Merge branch 'master' into stagingMarius Bakke
2020-06-08syscalls: set-thread-name, thread-name: Fix thinko.Jan (janneke) Nieuwenhuizen
* guix/build/syscalls.scm (set-thread-name, thread-name): Oops, fix thinko.
2020-06-08syscalls: set-thread-name, thread-name: Stub for the Hurd.Jan (janneke) Nieuwenhuizen
Avoid crash Backtrace: guix/build/syscalls.scm:405:8: In procedure prctl: Function not implemented because of missing prctl on the Hurd. * guix/build/syscalls.scm (set-thread-name, thread-name): Rename to ... (set-thread-name!/linux,thread-name/linux): ...this. (set-thread-name, thread-name): Swtich between linux implementation and or stub.
2020-06-07git-authenticate: Prevent removal of '.guix-authorizations'.Ludovic Courtès
* guix/git-authenticate.scm (commit-authorized-keys) [parents-have-authorizations-file?, assert-parents-lack-authorizations]: New procedures. Use the latter before returning DEFAULT-AUTHORIZATIONS. * guix/git.scm (false-if-git-not-found): Export. * guix/tests/git.scm (populate-git-repository): Add 'remove' clause. * tests/git-authenticate.scm ("signed commits, .guix-authorizations removed"): New test.
2020-06-07git: 'update-cached-checkout' gracefully handles missing starting commit.Ludovic Courtès
Fixes <https://bugs.gnu.org/41604> Reported by John Soo <jsoo1@asu.edu> and zimoun <zimon.toutoune@gmail.com>. * guix/git.scm (false-if-git-not-found): New macro. (reference-available?): Use it. (update-cached-checkout): Use it when looking up STARTING-COMMIT. Set RELATION to 'unrelated when OLD is #false.
2020-06-06ui: 'display-search-results' automatically invokes the pager.Ludovic Courtès
* guix/ui.scm (call-with-paginated-output-port): New procedure. (with-paginated-output-port): New macro. (display-search-results): Use it instead of displaying a hint.
2020-06-06utils: Add 'with-environment-variables'.Ludovic Courtès
* guix/tests/gnupg.scm (call-with-environment-variables) (with-environment-variables): Move to... * guix/utils.scm: ... here. * guix/tests/git.scm: Adjust accordingly.
2020-06-06packages: Make 'bag-grafts' insensitive to '%current-target-system'.Ludovic Courtès
Fixes <https://bugs.gnu.org/41713>. Reported by Mathieu Othacehe. * guix/packages.scm (bag-grafts): Wrap 'fold-bag-dependencies' calls in 'parameterize'. * tests/packages.scm ("package->bag, sensitivity to %current-target-system"): New test.
2020-06-06grafts: Improve performance for derivations with many inputs.Ludovic Courtès
Partly fixes <https://bugs.gnu.org/41702>. Reported by Lars-Dominik Braun <ldb@leibniz-psychology.org>. Previously we'd potentially traverse the same sub-graph of DEPS several times. With this patch, command: guix environment --ad-hoc r-learnr --search-paths goes from 11.3s to 4.6s. * guix/grafts.scm (reference-origin): Rename to... (reference-origins): ... this. Change 'item' parameter to 'items'. [lookup-derivers]: New procedure. (cumulative-grafts)[dependency-grafts]: Change 'item' to 'items' and use 'reference-origins'. Remove 'mapm' around 'dependency-grafts' call.
2020-06-06Merge branch 'master' into stagingMarius Bakke
2020-06-05git-authenticate: Add tests.Ludovic Courtès
* guix/tests/git.scm (call-with-environment-variables) (with-environment-variables): Remove. * guix/tests/git.scm (populate-git-repository): Add clauses for signed commits and signed merges. * guix/tests/gnupg.scm: New file. * tests/git-authenticate.scm: New file. * tests/ed25519bis.key, tests/ed25519bis.sec: New files. * Makefile.am (dist_noinst_DATA): Add 'guix/tests/gnupg.scm'. (SCM_TESTS): Add 'tests/git-authenticate.scm'. (EXTRA_DIST): Add tests/ed25519bis.{key,sec}.
2020-06-05git-authenticate: Raise proper SRFI-35 conditions.Ludovic Courtès
* guix/git-authenticate.scm (&git-authentication-error) (&unsigned-commit-error, &unauthorized-commit-error) (&signature-verification-error, &missing-key-error): New condition types. (commit-signing-key, authenticate-commit): Raise them.
2020-06-05git-authenticate: Don't hard-code "origin/" for keyring reference.Ludovic Courtès
* guix/git-authenticate.scm (load-keyring-from-reference): Remove hard-coded "origin/". Use BRANCH-ALL instead of BRANCH-REMOTE.
2020-06-05Add (guix git-authenticate).Ludovic Courtès
* build-aux/git-authenticate.scm (commit-signing-key) (read-authorizations, commit-authorized-keys, authenticate-commit) (load-keyring-from-blob, load-keyring-from-reference) (authenticate-commits, authenticated-commit-cache-file) (previously-authenticated-commits, cache-authenticated-commit): Remove. * build-aux/git-authenticate.scm (git-authenticate): Pass #:default-authorizations to 'authenticate-commits'. * guix/git-authenticate.scm: New file, with code taken from 'build-aux/git-authenticate.scm'. Remove references to '%historical-authorized-signing-keys' and add #:default-authorizations parameter instead. * Makefile.am (MODULES): Add it. (authenticate): Depend on guix/git-authenticate.go.
2020-06-02build-system: linux-module: Allow passing #:make-flags argument.Danny Milosavljevic
* guix/build-system/linux-module.scm (linux-module-build): Add #:make-flags. (linux-module-build-cross): Add #:make-flags. * guix/build/linux-module-build-system.scm (install): Pass make-flags. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2020-06-01combinators: Recurse fold2 to named let loop.Arun Isaac
* guix/combinators.scm (fold2): Recurse to named let loop, not fold2 itself. Signed-off-by: Jakub Kądziołka <kuba@kadziolka.net>
2020-05-29Merge branch 'master' into stagingMarius Bakke
2020-05-29size: Document that positional arguments can be store items.Pierre Neidhardt
* guix/scripts/size.scm (show-help): Mention STORE-ITEM positional argument alternative.
2020-05-29syscalls: 'terminal-dimension' ignores EPERM.Ludovic Courtès
Fixes <https://bugs.gnu.org/41581>. Reported by Tobias Geerinckx-Rice <me@tobias.gr>. * guix/build/syscalls.scm (terminal-dimension): Add EPERM to the list of errno code for FALL-BACK.
2020-05-29syscalls: Properly match %HOST-TYPE.Jesse Dowell
Fixes <https://bugs.gnu.org/41546>. Regression introduced in 0d371c633f7308cfde2432d6119d386a5c63198c. * guix/build/syscalls.scm (write-socket-address!) (read-socket-address): Use 'string-contains' instead of 'string-suffix?'. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-05-29quirks: Build 'compute-guix-derivation' modules with 2.2 when needed.Ludovic Courtès
Fixes <https://bugs.gnu.org/41595>. Reported by Jan Nieuwenhuizen <janneke@gnu.org>. * guix/quirks.scm (requires-guile-2.2?): New procedure. (%quirks): Add it. (%bug-41214-patch): Comment.
2020-05-29utils: Add 'cc-for-target'.Marius Bakke
* guix/utils.scm (cc-for-target): New procedure.
2020-05-29image: Do not use VM to create disk-images.Mathieu Othacehe
Now that installing Grub on raw disk-images is supported, we do not need to rely on (gnu system vm) module. * gnu/system/image.scm (make-system-image): Rename to ... (system-image): ... this, and remove the compatibility wrapper. (find-image): Turn to a monadic procedure. This will become useful when introducing Hurd support, to be able to detect the target system. * gnu/ci.scm (qemu-jobs): Use lower-object now that system-image returns a file-like object. * gnu/tests/install.scm (run-install): Ditto. * guix/scripts/system.scm (system-derivation-for-action): Add a 'base-image' argument, (perform-action): adapt accordingly.
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