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2020-12-15import: cran: Use CRAN’s canonical URL as home-page....* guix/import/cran.scm (%cran-canonical-url): New variable. (description->package): Construct home-page using canonical URL. Signed-off-by: Christopher Baines <mail@cbaines.net> Lars-Dominik Braun
2020-12-15deduplicate: Create the '.links' directory lazily....This avoids repeated (mkdir-p "/gnu/store/.links") calls when deduplicating lots of files. * guix/store/deduplication.scm (deduplicate): Remove initial call to 'mkdir-p'. Add ENOENT case in 'link' exception handler. Reindent. * tests/store-deduplication.scm ("deduplicate, ENOSPC"): Check for (<= links 4) to account for the initial 'link' call. Ludovic Courtès
2020-12-15database: Honor 'SOURCE_DATE_EPOCH'....* guix/store/database.scm (timestamp): New procedure. (sqlite-register): Use it as the default for #:time. (register-items): Likewise for #:registeration-time. Ludovic Courtès
2020-12-15database: Remove 'register-path'....* guix/store/database.scm (register-path): Remove. * tests/store-database.scm ("register-path"): Rename to... ("register-items"): ... this, and use 'register-items' instead of 'register-path'. ("register-path, directory"): Rename to... ("register-items, directory"): ... this, and use 'register-items' instead of 'register-path'. ("register-path with unregistered references"): Rename to... ("sqlite-register with unregistered references"): ... this. Ludovic Courtès
2020-12-15system: 'init' does not recompute the hash of each store item....Fixes <https://bugs.gnu.org/44760>. Previously, the 'register-path' call would re-traverse ITEM to compute its nar hash, even though that hash is already known in the initial store. This patch also avoids repeated opening/closing of the database. * guix/store/database.scm (call-with-database): Export. * guix/scripts/system.scm (copy-item): Add 'db' parameter. Call 'sqlite-register' instead of 'register-path'. (copy-closure): Remove redundant call to 'references*'. Call 'call-with-database' and pass the database to 'copy-item'. Ludovic Courtès
2020-12-15database: Remove #:deduplicate? and #:reset-timestamps? from 'register-path'....* guix/store/database.scm (register-path): Remove #:deduplicate? and #:reset-timestamps?. * guix/scripts/system.scm (copy-item): Adjust accordingly. * tests/store-database.scm ("register-path") ("register-path, directory"): Call 'reset-timestamps'. Ludovic Courtès
2020-12-15guix system: 'init' copies, resets timestamps, and deduplicates at once....Partly fixes <https://bugs.gnu.org/44760>. * guix/build/store-copy.scm (copy-store-item): New procedure. (populate-store): Use it instead of the inline 'copy-recursively' call. * guix/scripts/system.scm (copy-item): Likewise. Pass #:reset-timestamps? and #:deduplicate? to 'register-path'. Ludovic Courtès
2020-12-15database: Remove #:deduplicate? from 'register-items'....It is now up to the caller to deduplicate store contents. * guix/store/database.scm (register-items): Remove #:deduplicate? parameter and call to 'deduplicate'. (register-path): Call 'deduplicate' when #:deduplicate? is true. * gnu/build/image.scm (register-closure): Adjust call accordingly. * gnu/build/vm.scm (register-closure): Likewise. * guix/nar.scm (finalize-store-file): Likewise. * guix/scripts/pack.scm (store-database): Likewise. Ludovic Courtès
2020-12-15store-copy: 'populate-store' can optionally deduplicate files....Until now deduplication was performed as an additional pass after copying files, which involve re-traversing all the files that had just been copied. * guix/store/deduplication.scm (copy-file/deduplicate): New procedure. * tests/store-deduplication.scm ("copy-file/deduplicate"): New test. * guix/build/store-copy.scm (populate-store): Add #:deduplicate? parameter and honor it. * tests/gexp.scm ("gexp->derivation, store copy"): Pass #:deduplicate? #f to 'populate-store'. * gnu/build/image.scm (initialize-root-partition): Pass #:deduplicate? to 'populate-store'. Pass #:deduplicate? #f to 'register-closure'. * gnu/build/vm.scm (root-partition-initializer): Likewise. * gnu/build/install.scm (populate-single-profile-directory): Pass #:deduplicate? #f to 'populate-store'. * gnu/build/linux-initrd.scm (build-initrd): Likewise. * guix/scripts/pack.scm (self-contained-tarball)[import-module?]: New procedure. [build]: Pass it as an argument to 'source-module-closure'. * guix/scripts/pack.scm (squashfs-image)[build]: Wrap in 'with-extensions'. * gnu/system/linux-initrd.scm (expression->initrd)[import-module?]: New procedure. [builder]: Pass it to 'source-module-closure'. * gnu/system/install.scm (cow-store-service-type)[import-module?]: New procedure. Pass it to 'source-module-closure'. Ludovic Courtès
2020-12-15database: Remove #:reset-timestamps? from 'register-items'....The assumption now is that the caller took care of resetting timestamps and permissions. * guix/store/database.scm (register-items): Remove #:reset-timestamps? parameter and the call to 'reset-timestamps'. (register-path): Adjust accordingly and add call to 'reset-timestamps'. * gnu/build/image.scm (register-closure): Remove #:reset-timestamps? parameter to 'register-items'. * gnu/build/vm.scm (register-closure): Likewise. * guix/nar.scm (finalize-store-file): Adjust accordingly. * guix/scripts/pack.scm (store-database)[build]: Likewise. Ludovic Courtès
2020-12-15store-copy: 'populate-store' resets timestamps....Until now, 'populate-store' would reset permissions but not timestamps, so callers would resort to going through an extra directory traversal to reset timestamps. * guix/build/store-copy.scm (reset-permissions): Remove. (copy-recursively): New procedure. (populate-store): Pass #:keep-permissions? to 'copy-recursively'. Remove call to 'reset-permissions'. * tests/gexp.scm ("gexp->derivation, store copy"): In BUILD-DRV, check whether 'populate-store' canonicalizes permissions and timestamps. * gnu/build/image.scm (initialize-root-partition): Pass #:reset-timestamps? #f to 'register-closure'. * gnu/build/vm.scm (root-partition-initializer): Likewise. Ludovic Courtès
2020-12-15nar: Deduplicate files right as they are restored....This avoids having to traverse and re-read the files that we have just restored, thereby reducing I/O. * guix/serialization.scm (dump-file): New procedure. (restore-file): Add #:dump-file parameter and honor it. * guix/store/deduplication.scm (tee, dump-file/deduplicate): New procedures. * guix/nar.scm (restore-one-item): Pass #:dump-file to 'restore-file'. (finalize-store-file): Pass #:deduplicate? #f to 'register-items'. * tests/nar.scm <top level>: Call 'setenv' to set "NIX_STORE". Ludovic Courtès
2020-12-15serialization: 'restore-file' sets canonical timestamp and permissions....* guix/serialization.scm (restore-file): Set the permissions and mtime of FILE. * guix/nar.scm (finalize-store-file): Pass #:reset-timestamps? #f to 'register-items'. * tests/nar.scm (rm-rf): Add 'chmod' calls to ensure files are writable. ("write-file + restore-file with symlinks"): Ensure every file in OUTPUT passes 'canonical-file?'. * tests/guix-archive.sh: Run "chmod -R +w" before "rm -rf". Ludovic Courtès
2020-12-15serialization: 'fold-archive' notifies about directory processing completion....* guix/serialization.scm (fold-archive): Call PROC with a 'directory-complete tag when done with a directory. (restore-file): Handle it. * guix/scripts/archive.scm (list-contents): Likewise. * guix/scripts/challenge.scm (archive-contents): Likewise. * tests/nar.scm ("write-file-tree + fold-archive"): Adjust accordingly. Ludovic Courtès
2020-12-15offload: Print warning in context....* guix/scripts/offload.scm (build-machine): Add `location` field. (build-machine-system): Print location with warning. Julien Lepiller
2020-12-13scripts: discover: Remove file locks....* guix/scripts/discover.scm (call-with-read-file-lock, with-read-file-lock): Remove them. (write-publish-file): Use "with-atomic-file-output" instead of "with-file-lock". (read-substitute-urls): Remove file lock. Mathieu Othacehe
2020-12-13download: Update ImageMagick mirror list....* guix/download.scm (%mirrors): Remove defunct ImageMagick mirrors, update URLs for directory structure changes (/releases instead of /legacy). Move official site last. Marius Bakke
2020-12-12import/cran: Abort with error message when recursive import fails....Previously, after a failed recursive import "guix import" would signal success. * guix/import/cran.scm (cran->guix-package): Raise a condition when all repositories have been exhausted. * guix/scripts/import/cran.scm (guix-import-cran): Handle errors. Ricardo Wurmus
2020-12-11self: Remove the empty string from '%load-extensions'....* guix/self.scm (guix-command): Set '%load-extensions'. Ludovic Courtès
2020-12-11self: Move Guile early in the module search path....Until now, Guile modules would first be searched for in MODULE-DIRECTORY, then in each $GUILE_LOAD_PATH entry, and finally in Guile itself. * guix/self.scm (guix-command): Make GUILE the second entry in the %LOAD-PATH and %LOAD-COMPILED-PATH. Ludovic Courtès
2020-12-10avahi: Ignore local services....* guix/avahi.scm (avahi-browse-service-thread): Add "ignore-local?" argument and honor it. Mathieu Othacehe
2020-12-09guix: Add globstar support....* guix/glob.scm (string->sglob) (glob-match?): Add globstar support. * tests/glob.scm: Update accordingly. Signed-off-by: Jelle Licht <jlicht@fsfe.org> Giacomo Leidi
2020-12-09import/utils: Fix conditional....This is a follow-up to commit 45584061a9ebe961e2be08ee94c3fe8ad74e2713. * guix/import/utils.scm (package->definition): Use EQ? instead of = to compare truthiness; use ELSE instead of (#T). Ricardo Wurmus
2020-12-09import: cran: Update the Bioconductor version to 3.12....* guix/import/cran.scm (%bioconductor-version): Set to 3.12. * guix/build-system/r.scm (bioconductor-uri): Update to 3.12. Roel Janssen
2020-12-08import: opam: Adjust test to latest 'opam->guix-package' changes....This is a followup to a8dccd4bdc1e58219d4ba08fe1649bf0b8325f44, which broke the test. * guix/import/opam.scm (get-opam-repository): Prevent inlining. * tests/opam.scm ("opam->guix-package"): Mock 'get-opam-repository'. Ludovic Courtès
2020-12-08substitute: Cache and reuse connections while substituting....That way, when fetching a series of substitutes from the same server(s), the connection is reused instead of being closed/opened for each substitutes, which saves on network round trips and TLS handshakes. * guix/http-client.scm (http-fetch): Add #:keep-alive? and honor it. * guix/progress.scm (progress-report-port): Add #:close? parameter and honor it. * guix/scripts/substitute.scm (at-most): Return the tail as a second value. (fetch): Add #:port and #:keep-alive? and honor them. (%max-cached-connections): New variable. (open-connection-for-uri/cached, call-with-cached-connection): New procedures. (with-cached-connection): New macro. (process-substitution): Wrap 'fetch' call in 'with-cached-connection'. Pass #:close? to 'progress-report-port'. Ludovic Courtès
2020-12-08daemon: Run 'guix substitute --substitute' as an agent....This avoids spawning one substitute process per substitution. * nix/libstore/build.cc (class Worker)[substituter]: New field. [outPipe, logPipe, pid]: Remove. (class SubstitutionGoal)[expectedHashStr, status, substituter]: New fields. (SubstitutionGoal::timedOut): Adjust to check 'substituter'. (SubstitutionGoal::tryToRun): Remove references to 'outPipe' and 'logPipe'. Run "guix substitute --substitute" as an 'Agent'. Send the request with 'writeLine'. (SubstitutionGoal::finished): Likewise. (SubstitutionGoal::handleChildOutput): Change to fill in 'expectedHashStr' and 'status'. (SubstitutionGoal::handleEOF): Call 'wakeUp' unconditionally. (SubstitutionGoal::~SubstitutionGoal): Adjust to check 'substituter'. * guix/scripts/substitute.scm (process-substitution): Write "success\n" to stdout upon success. (%error-to-file-descriptor-4?): New variable. (guix-substitute): Set 'current-error-port' to file descriptor 4 unless (%error-to-file-descriptor-4?) is false. Remove "--substitute" arguments. Loop reading line from stdin. * tests/substitute.scm <top level>: Call '%error-to-file-descriptor-4?'. (request-substitution): New procedure. ("substitute, no signature") ("substitute, invalid hash") ("substitute, unauthorized key") ("substitute, authorized key") ("substitute, unauthorized narinfo comes first") ("substitute, unsigned narinfo comes first") ("substitute, first narinfo is unsigned and has wrong hash") ("substitute, first narinfo is unsigned and has wrong refs") ("substitute, two invalid narinfos") ("substitute, narinfo with several URLs"): Adjust to new "guix substitute --substitute" calling convention. Ludovic Courtès
2020-12-08daemon: Use 'Agent' to spawn 'guix substitute --query'....* nix/libstore/local-store.hh (RunningSubstituter): Remove. (LocalStore)[runningSubstituter]: Change to unique_ptr<Agent>. [setSubstituterEnv, didSetSubstituterEnv]: Remove. [getLineFromSubstituter, getIntLineFromSubstituter]: Take an 'Agent'. * nix/libstore/local-store.cc (LocalStore::~LocalStore): Remove reference to 'runningSubstituter'. (LocalStore::setSubstituterEnv, LocalStore::startSubstituter): Remove. (LocalStore::getLineFromSubstituter): Adjust to 'run' being an 'Agent'. (LocalStore::querySubstitutablePaths): Spawn substituter agent if needed. Adjust to 'Agent' interface. (LocalStore::querySubstitutablePathInfos): Likewise. * nix/libstore/build.cc (SubstitutionGoal::tryToRun): Remove call to 'setSubstituterEnv' and add 'setenv' call for "_NIX_OPTIONS" instead. (SubstitutionGoal::finished): Remove 'readLine' call for 'dummy'. * guix/scripts/substitute.scm (%allow-unauthenticated-substitutes?): Remove second argument to 'make-parameter'. (process-query): Call 'warn-about-missing-authentication' when (%allow-unauthenticated-substitutes?) is #t. (guix-substitute): Wrap body in 'parameterize'. Set 'guix-warning-port' too. No longer exit when 'substitute-urls' returns the empty list. No longer print newline initially. * tests/substitute.scm (test-quit): Parameterize 'current-error-port' to account for the port changes in 'guix-substitute'. Ludovic Courtès
2020-12-08database: Remove unnecessary module imports....* guix/store/database.scm: Remove unnecessary imports added in 4b9eecd322e566783369795ebea63a479b51f486. Ludovic Courtès
2020-12-08guix: opam: Add coq support in the importer....* guix/import/opam.scm (get-opam-repository): Add support for coq repositories. (ocaml-name->guix-name): Properly name coq package. * doc/guix.texi (Invoking guix import): Document it. Julien Lepiller
2020-12-08guix: opam: Add --repo argument to importer....* guix/scripts/import/opam.scm (guix-import-opam): Pass --repo argument to recursive and non-recursive importers. * guix/import/opam.scm (get-opam-repository): Select proper repository location depending on a new repo argument. (opam->guix-package): Use get-opam-repository in the procedure body. Julien Lepiller
2020-12-08guix: opam: Pass default repository to recursive importer....* guix/import/opam.scm (opam->guix-package): Rename #:repository key to #:repo. (opam-recursive-import): Pass #:repo keyword. * tests/opam.scm (opam->guix-package): Rename #:repository to #:repo. Julien Lepiller
2020-12-08guix: opam: Filter implicit inputs....* guix/import/opam.scm (opam->guix-package, depends->inputs): Filter out implicit inputs. Julien Lepiller
2020-12-08guix: opam: Remove stray `pk'....* guix/import/opam.scm (opam->guix-package): Remove stray `pk'. Julien Lepiller
2020-12-07ci: Add "evaluation" method....* guix/ci.scm (evaluation): New procedure. Mathieu Othacehe
2020-12-07ci: Add evaluation field to build record....* guix/ci.scm (<build>): Add "evaluation" field. Mathieu Othacehe
2020-12-07profiles: Delete duplicate manifest entries in packages->manifest....* gnu/profiles.scm (packages->manifest): Delete duplicate entries. * tests/profiles.scm ("packages->manifest, no duplicates"): New test. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Leo Prikler
2020-12-07profiles: Remove duplicates in manifest transactions....Fixes <https://bugs.gnu.org/23874>. Reported by Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>. * guix/profiles.scm (manifest-transaction-effects): Delete duplicates in install and remove. Let multiple upgrades and downgrades shadow previous transactions of the same kind. * tests/profiles.scm ("manifest-transaction-effects no double install or upgrades") ("manifest-transaction-effects no double downgrade") ("manifest-transaction-effects no double removal"): New tests. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Leo Prikler
2020-12-05ui: Handle multiword and empty $PAGER values....* guix/ui.scm (call-with-paginated-output-port): Empty PAGER values disable paging. Non-empty ones are split into command arguments. Reported by Daniel Brooks <db48x@db48x.net>. Tobias Geerinckx-Rice
2020-12-05pull: Accept no non-option arguments....* guix/scripts/pull.scm (guix-pull): LEAVE if any non-option arguments were passed. Tobias Geerinckx-Rice
2020-12-05scripts: discover: Check for cache file existence....Fixes: https://issues.guix.gnu.org/45045. * guix/scripts/discover.scm (read-substitute-urls): Check for file existence. Mathieu Othacehe
2020-12-04git: 'reference-available?' handles short commit IDs....Reported by Simon Tournier on #guix. Until now 'reference-available?' would always return #f when passed a short commit ID. * guix/git.scm (reference-available?): Call 'object-lookup-prefix' when COMMIT is shorter than 40 characters. Ludovic Courtès
2020-12-04import: crate: Skip tests when Guile-Semver is missing....* guix/import/crate.scm: Add comment for the 'module-autoload!' calls. * tests/crate.scm (have-guile-semver?): New variable. ("crate->guix-package", "cargo-recursive-import") ("cargo-recursive-import-hoors-existing-packages"): Skip when HAVE-GUILE-SEMVER? is false. Ludovic Courtès
2020-12-04scripts: substitute: Fix discover option....The discover option can be unset or set to "yes/no". Handle both cases. * guix/scripts/substitute.scm (%local-substitute-urls): Fix discover option. Mathieu Othacehe
2020-12-04import/cran: Do not attempt to generate definitions for failed imports....* guix/scripts/import/cran.scm (guix-import-cran): Remove failed imports from list of packages to define. Ricardo Wurmus
2020-12-04import/cran: Fix calls to CRAN->GUIX-PACKAGE....* guix/import/cran.scm (cran->guix-package, latest-bioconductor-release): Invoke CRAN->GUIX-PACKAGE with #:REPO keyword argument. Ricardo Wurmus
2020-12-03build-system: Add chicken-build-system....* guix/build-system/chicken.scm: New file. * guix/build/chicken-build-system.scm: New file. * Makefile.am: Add them. * doc/guix.texi: Document it. Signed-off-by: Ludovic Courtès <ludo@gnu.org> raingloom
2020-12-03self: Factorize package dependency enumeration....* guix/self.scm (transitive-package-dependencies): New procedure. (compiled-guix)[dependencies]: Use it. Ludovic Courtès
2020-12-03gnu: guile-semver: Switch to Guile 3.0....* gnu/packages/guile-xyz.scm (guile-semver)[inputs]: Use GUILE-3.0. (guile3.0-semver): Define in terms of 'deprecated-package'. (guile2.2-semver): New variable. Ludovic Courtès
2020-12-02import: crate: Use existing package satisfying semver requirement....If a package satisfying the dependency's semver requirement already exists, use it. Prior to this change the highest version matching the semver requirement was used (and imported in case it was not defined as package already). When resolving a dependency (now done in `sort-map-dependencies`), first search for a package matching the semver requirement and only if this fails reach out for a crate. * guix/import/crate.scm (crate->guix-package)[find-package-version]: New function. [dependency-name+version]: New function. [sort-map-dependencies]: Use it instead of lambda function. * tests/crate.scm (test-doctool-crate, test-doctool-dependencies): New variables. ("self-test …", "cargo-recursive-import-hoors-existing-packages"): New tests. Hartmut Goebel