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2020-12-08database: Remove unnecessary module imports....* guix/store/database.scm: Remove unnecessary imports added in 4b9eecd322e566783369795ebea63a479b51f486. Ludovic Courtès
2020-09-14database: register-items: reduce transaction scope....It was made transactional in a4678c6ba18d8dbd79d931f80426eebf61be7ebe, with the reasoning to prevent broken intermediate states from being visible. I think this means something like an entry being in ValidPaths, but the Refs not being inserted. Using a transaction for this makes sense, but I think using one single transaction for the whole register-items call is unnecessary to avoid broken states from being visible, and could block other writes to the store database while register-items is running. Because the deduplication and resetting timestamps happens within the transaction as well, even though these things don't involve the database, writes to the database will still be blocked while this is happening. To reduce the potential for register-items to block other writers to the database for extended periods, this commit moves the transaction to just wrap the call to sqlite-register. This is the one place where writes occur, so that should prevent the broken intermediate states issue above. The one difference this will make is some of the registered items will be visible to other connections while others may be still being added. I think this is OK, as it's equivalent to just registering different items. * guix/store/database.scm (register-items): Reduce transaction scope. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Christopher Baines
2020-09-14database: document extra registration requirements....It's necessary that store items be locked and protected from garbage collection while they are being registered. This documents that. * guix/store/database.scm (register-path, register-items): document GC protection and locking requirements. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Caleb Ristvedt
2020-09-14deduplication: pass store directory to replace-with-link....This causes with-writable-file to take into consideration the actual store being used, as passed to 'deduplicate', rather than whatever (%store-directory) may return. * guix/store/deduplication.scm (replace-with-link): new keyword argument 'store'. Pass to with-writable-file. (with-writable-file, call-with-writable-file): new store argument. (deduplicate): pass store to replace-with-link. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Caleb Ristvedt
2020-07-28store: deduplication: Handle fs without d_type support....scandir* uses readdir, which means that the file type property can be 'unknown if the underlying file-system does not support d_type. Make sure to fallback to lstat in that case. Fixes: https://issues.guix.gnu.org/issue/42579. * guix/store/deduplication.scm (deduplicate): Handle the case where properties is 'unknown because the underlying file-system does not support d_type. Mathieu Othacehe
2020-07-11image: Do not set journal_model=WAL for the Hurd....This fixes <https://bugs.gnu.org/42151>. * gnu/system/images/hurd.scm (hurd-initialize-root-partition): Use #:wal-mode #f in call to ... * gnu/build/image.scm (initialize-root-partition): ... this, add #:wal-mode? parameter, pass it to ... (register-closure): ... this, add #:wal-mode? parameter, pass it to ... * guix/store/database.scm (with-database): ... this, add #:wal-mode? parameter, pass it to ... (call-with-database): ... this, add #:wal-mode? parameter; when set to #f, do not set journal_model=WAL. Jan (janneke) Nieuwenhuizen
2020-06-25deduplication: Leave the store permissions unchanged....Suggested by Caleb Ristvedt <caleb.ristvedt@cune.org>. * guix/store/deduplication.scm (call-with-writable-file): Call THUNK directly when FILE is (%store-directory). Ludovic Courtès
2020-06-25deduplication: Fix default value of #:store in 'deduplicate'....* guix/store/deduplication.scm (deduplicate): Change #:store default value to (%store-directory). Ludovic Courtès
2020-06-25deduplication: Use 'dynamic-wind' when changing permissions of the parent....Suggested by Caleb Ristvedt <caleb.ristvedt@cune.org>. * guix/store/deduplication.scm (call-with-writable-file): New procedure. (with-writable-file): New macro. (replace-with-link): Use it. Ludovic Courtès
2020-06-22deduplicate: Avoid traversing directories twice....Until now, we'd call (nar-sha256 file) unconditionally. Thus, if FILE was a directory, we would traverse it for no reason, and then call 'deduplicate' on FILE, which would again traverse it. This change also removes redundant (mkdir-p store) calls from the loop, and avoids 'lstat' calls by using 'scandir*'. * guix/store/deduplication.scm (deduplicate): Add named loop. Move 'mkdir-p' outside the loop. Use 'scandir*' instead of 'scandir'. Do not call 'nar-sha256' when FILE has type 'directory. Ludovic Courtès
2020-06-18database: 'register-items' takes an open database....* guix/store/database.scm (store-database-directory) (store-database-file): New procedures. (call-with-database): Add call to 'mkdir-p'. (register-items): Add 'db' parameter and remove #:state-directory and #:schema. (register-path): Use 'store-database-file' and 'with-database', and parameterize SQL-SCHEMA. * gnu/build/image.scm (register-closure): Likewise. * gnu/build/vm.scm (register-closure): Likewise. * guix/scripts/pack.scm (store-database)[build]: Likewise. Ludovic Courtès
2020-06-10database: separate transaction-handling and retry-handling....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. Caleb Ristvedt
2020-06-10database: ensure update-or-insert is run within a transaction...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. Caleb Ristvedt
2020-06-10database: rewrite query procedures in terms of with-statement....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. Caleb Ristvedt
2020-06-10database: work around guile-sqlite3 bug preventing statement reset...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). Caleb Ristvedt
2020-04-11database: 'reset-timestamps' can optionally preserve permissions....* guix/store/database.scm (reset-timestamps): Add #:preserve-permissions? and honor it. Ludovic Courtès
2020-02-22deduplication: Use nix-base32 encoding for link names....Fixes <https://bugs.gnu.org/39725>. * guix/store/deduplication.scm (deduplicate): Use 'bytevector->nix-base32-string' instead of 'bytevector->base16-string'. Ludovic Courtès
2019-09-08daemon: Invoke 'guix gc --list-busy' instead of 'list-runtime-roots'....* nix/scripts/list-runtime-roots.in: Remove. * guix/store/roots.scm (%proc-directory): New variable. (proc-file-roots, proc-exe-roots, proc-cwd-roots) (proc-fd-roots, proc-maps-roots, proc-environ-roots) (referenced-files, canonicalize-store-item, busy-store-items): New procedures, taken from 'list-runtime-roots.in'. * nix/libstore/globals.hh (Settings)[guixProgram]: New field. * nix/libstore/globals.cc (Settings::processEnvironment): Initialize 'guixProgram'. * nix/libstore/gc.cc (addAdditionalRoots): Drop code related to 'NIX_ROOT_FINDER'. Run "guix gc --list-busy". * nix/local.mk (nodist_pkglibexec_SCRIPTS): Remove 'scripts/list-runtime-roots'. * config-daemon.ac: Don't output nix/scripts/list-runtime-roots. * build-aux/pre-inst-env.in: Don't set 'NIX_ROOT_FINDER'. Set 'GUIX'. * doc/guix.texi (Invoking guix gc): Document '--list-busy'. * guix/scripts/gc.scm (show-help, %options): Add "--list-busy". (guix-gc)[list-busy]: New procedure. Handle the 'list-busy' action. Ludovic Courtès
2019-04-25gnu, guix: Yearly ritual purging of the filesystems....* gnu/packages/android.scm (android-ext4-utils)[synopsis]: Fix ‘file system’ spelling. * gnu/packages/disk.scm (rmlint)[synopsis, description]: Likewise. * gnu/packages/golang.scm (go-github-com-kr-fs)[synopsis, description]: Likewise & edit for grammar. * gnu/packages/ipfs.scm (gx, go-ipfs)[description]: Likewise. * /gnu/packages/java.scm (java-commons-vfs)[synopsis]: Likewise. * gnu/packages/linux.scm (fuseiso)[description]: Likewise. (genext2fs)[synopsis, description]: Likewise. * gnu/packages/package-management.scm (libostree)[description]: Likewise. * gnu/packages/python-xyz.scm (python-requests-file)[description]: Likewise & mark up. * gnu/packages/rails.scm (ruby-with-advisory-lock)[description]: Likewise. * gnu/packages/ruby.scm (ruby-rerun)[description]: Likewise. * guix/build/go-build-system.scm (setup-go-environment)<docstring>: Likewise. * guix/store/deduplication.scm (get-temp-link)<docstring>: Likewise. Tobias Geerinckx-Rice
2019-04-10Add (guix store roots)....* guix/store/roots.scm, tests/store-roots.scm: New files. * Makefile.am (STORE_MODULES): Add guix/store/roots.scm. (SCM_TESTS): Add tests/store-roots.scm. Ludovic Courtès
2019-03-07database: Make 'register-items' transactional....* guix/store/database.scm (SQLITE_BUSY, register-output-sql): New variables. (add-references): Don't try finalizing after each use, only after all the uses (otherwise a finalized statement would be used if #:cache? was #f). (call-with-transaction): New procedure. (register-items): Use call-with-transaction to prevent broken intermediate states from being visible. * .dir-locals.el (call-with-transaction): indent it. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Caleb Ristvedt
2019-01-23deduplication: Ignore EMLINK....Until now 'guix offload' would fail (transient failure) upon EMLINK. * guix/store/deduplication.scm (replace-with-link) (deduplicate): Ignore EMLINK. Ludovic Courtès
2018-12-21database: Use "write-ahead log" mode and set a long "busy timeout"....This should avoid "database is locked" errors when there's a lot of concurrency, for instance when offloading simultaneously a lot of builds. * guix/store/database.scm (call-with-database): Add two 'sqlite-exec' calls to set 'journal_mode' and 'busy_timeout'. Ludovic Courtès
2018-12-14deduplication: Gracefully handle ENOSPC raised by 'link' calls....Reported by Andreas Enge <andreas@enge.fr> in <https://bugs.gnu.org/33676>. * guix/store/deduplication.scm (replace-with-link): Catch ENOSPC around 'get-temp-link'. Do nothing when 'get-temp-link' throws ENOSPC. Move code to restore PARENT's permissions outside of 'catch'. * tests/store-deduplication.scm ("deduplicate, ENOSPC"): New test. Ludovic Courtès
2018-11-23Update Guile-SQLite3 URL everywhere....* README: Update Guile-SQLite3 URL. * doc/guix.texi (Requirements): Likewise. * guix/store/database.scm (sqlite-exec): Likewise. * m4/guix.m4 (GUIX_CHECK_GUILE_SQLITE3): Likewise. Ludovic Courtès
2018-11-13deduplication: Restore directory mtime and permissions after deduplication....Fixes <https://bugs.gnu.org/33361>. * guix/store/deduplication.scm (replace-with-link): Call 'set-file-time' and 'chmod' after 'rename-file'. * tests/nar.scm ("restore-file-set with directories (signed, valid)"): New test. Ludovic Courtès
2018-11-13nar: Access the database instead of connecting to the daemon....* guix/store/database.scm (%default-database-file): New variable. (path-id): Export. * guix/nar.scm (finalize-store-file): Use 'with-database' instead of 'with-store', and use 'path-id' instead of 'valid-path?'. Ludovic Courtès
2018-09-23database: Register each store item only once....Fixes <https://bugs.gnu.org/32600>. Reported by Leo Famulari. * guix/store/database.scm (register-items): Check whether TO-REGISTER is in DB by calling 'path-id', and skip the reset-timestamps, registration, and deduplication phases when it is. Ludovic Courtès
2018-09-23database: 'register-items' shows a progress bar....* guix/store/database.scm (register-items): Add #:log-port. Use 'progress-reporter/bar' to show a progress report. (register-path): Pass #:log-port to 'register-items'. Ludovic Courtès
2018-09-04Switch to Guile-Gcrypt....This removes (guix hash) and (guix pk-crypto), which now live as part of Guile-Gcrypt (version 0.1.0.) * guix/gcrypt.scm, guix/hash.scm, guix/pk-crypto.scm, tests/hash.scm, tests/pk-crypto.scm: Remove. * configure.ac: Test for Guile-Gcrypt. Remove LIBGCRYPT and LIBGCRYPT_LIBDIR assignments. * m4/guix.m4 (GUIX_ASSERT_LIBGCRYPT_USABLE): Remove. * README: Add Guile-Gcrypt to the dependencies; move libgcrypt as "required unless --disable-daemon". * doc/guix.texi (Requirements): Likewise. * gnu/packages/bash.scm, guix/derivations.scm, guix/docker.scm, guix/git.scm, guix/http-client.scm, guix/import/cpan.scm, guix/import/cran.scm, guix/import/crate.scm, guix/import/elpa.scm, guix/import/gnu.scm, guix/import/hackage.scm, guix/import/texlive.scm, guix/import/utils.scm, guix/nar.scm, guix/pki.scm, guix/scripts/archive.scm, guix/scripts/authenticate.scm, guix/scripts/download.scm, guix/scripts/hash.scm, guix/scripts/pack.scm, guix/scripts/publish.scm, guix/scripts/refresh.scm, guix/scripts/substitute.scm, guix/store.scm, guix/store/deduplication.scm, guix/tests.scm, tests/base32.scm, tests/builders.scm, tests/challenge.scm, tests/cpan.scm, tests/crate.scm, tests/derivations.scm, tests/gem.scm, tests/nar.scm, tests/opam.scm, tests/pki.scm, tests/publish.scm, tests/pypi.scm, tests/store-deduplication.scm, tests/store.scm, tests/substitute.scm: Adjust imports. * gnu/system/vm.scm: Likewise. (guile-sqlite3&co): Rename to... (gcrypt-sqlite3&co): ... this. Add GUILE-GCRYPT. (expression->derivation-in-linux-vm)[config]: Remove. (iso9660-image)[config]: Remove. (qemu-image)[config]: Remove. (system-docker-image)[config]: Remove. * guix/scripts/pack.scm: Adjust imports. (guile-sqlite3&co): Rename to... (gcrypt-sqlite3&co): ... this. Add GUILE-GCRYPT. (self-contained-tarball)[build]: Call 'make-config.scm' without #:libgcrypt argument. (squashfs-image)[libgcrypt]: Remove. [build]: Call 'make-config.scm' without #:libgcrypt. (docker-image)[config, json]: Remove. [build]: Add GUILE-GCRYPT to the extensions Remove (guix config) from the imported modules. * guix/self.scm (specification->package): Remove "libgcrypt", add "guile-gcrypt". (compiled-guix): Remove #:libgcrypt. [guile-gcrypt]: New variable. [dependencies]: Add it. [*core-modules*]: Remove #:libgcrypt from 'make-config.scm' call. Add #:extensions. [*config*]: Remove #:libgcrypt from 'make-config.scm' call. (%dependency-variables): Remove %libgcrypt. (make-config.scm): Remove #:libgcrypt. * build-aux/build-self.scm (guile-gcrypt): New variable. (make-config.scm): Remove #:libgcrypt. (build-program)[fake-gcrypt-hash]: New variable. Add (gcrypt hash) to the imported modules. Adjust load path assignments. * gnu/packages/package-management.scm (guix)[propagated-inputs]: Add GUILE-GCRYPT. [arguments]: In 'wrap-program' phase, add GUILE-GCRYPT to the search path. Ludovic Courtès
2018-07-20database: Reset timestamps to one second after the Epoch....Previously, store items registered in the database by this code (for instance, store items retrieved by 'guix offload' and passed to 'restore-file-set') would have an mtime of 0 instead of 1. This would cause problems for things like .go files: Guile would consider them to be older than the corresponding .scm file, and consequently it would ignore them and possibly use another (incorrect) .go file. Reported by Ricardo Wurmus. * guix/store/database.scm (reset-timestamps): Pass 1, not 0, to 'utime'. * tests/store-database.scm ("register-path"): Check the mtime of FILE and REF. Ludovic Courtès
2018-07-20deduplication: Work around Guile bug in 'seek'....Fixes <https://bugs.gnu.org/32161>. Reported by Ricardo Wurmus <rekado@elephly.net>. This mostly reverts 83099892e0cf0d9c59f5e1a0774331026e48baa8. * guix/store/deduplication.scm (counting-wrapper-port): New procedure. (nar-sha256): Use it. Ludovic Courtès
2018-07-19deduplication: Remove 'counting-wrapper-port'....* guix/store/deduplication.scm (counting-wrapper-port): Remove. (nar-sha256): Call 'port-position' directly on PORT. Ludovic Courtès
2018-07-03database: 'reset-timestamps' now correctly handles symlinks....* guix/store/database.scm (reset-timestamps): Use 'utime' with AT_SYMLINK_NOFOLLOW for symlinks. Ludovic Courtès
2018-07-03deduplication: Remove 'false-if-system-error', now unused....* guix/store/deduplication.scm (false-if-system-error): Remove. Ludovic Courtès
2018-07-03deduplication: Place link files under /gnu/store/.links....Previously they'd always be placed next to TO-REPLACE, which would lead to EPERM in some cases. * guix/store/deduplication.scm (replace-with-link): Add #:swap-directory parameter and honor it. Add call to 'make-file-writable'. Catch 'system-error' around 'rename-file'. (deduplicate): Pass #:swap-directory and remove uses of 'false-if-system-error'. * tests/store-deduplication.scm ("deduplicate"): Add 'chmod' call. Ludovic Courtès
2018-07-03deduplication: Fix incorrect use of 'throw'....* guix/store/deduplication.scm (get-temp-link): In handler, fix call to 'throw'. Ludovic Courtès
2018-06-14database: Allow for deterministic database construction....Fixes <https://bugs.gnu.org/21073>. * guix/store/database.scm (sqlite-register): Add #:time. (%epoch): New variable. (register-items): Add #:registration-time. Pass #:time to 'sqlite-register'. * gnu/build/install.scm (register-closure): Pass #:registration-time. Ludovic Courtès
2018-06-14install: Use 'reset-timestamps' from (guix store database)....* gnu/build/install.scm (reset-timestamps): Remove. * gnu/build/vm.scm: Use 'reset-timestamps' from (guix store database). Ludovic Courtès
2018-06-14database: Add 'register-items'....* guix/build/store-copy.scm (store-info): Export. * guix/store/database.scm (register-items): New procedure. (register-path): Implement in terms of 'register-items'. * gnu/build/install.scm (register-closure): Use 'register-items' instead of 'for-each' and 'register-path'. Ludovic Courtès
2018-06-14database: 'sqlite-register' takes a database, not a file name....* guix/store/database.scm (sqlite-register): Remove #:db-file and add 'db' parameter. Remove #:schema and 'parameterize'. (register-path): Wrap 'sqlite-register' call in 'with-database' and in 'parameterize'. * tests/store-database.scm ("new database") ("register-path with unregistered references"): Adjust accordingly. Ludovic Courtès
2018-06-14database: 'reset-timestamps' sets file permissions as well....* guix/store/database.scm (reset-timestamps): Add 'chmod' calls. Ludovic Courtès
2018-06-14database: Replace existing entries in Refs....* guix/store/database.scm (add-reference-sql): Add "OR REPLACE". Ludovic Courtès
2018-06-14database: Add #:reset-timestamps? to 'register-path'....* guix/store/database.scm (register-path): Add #:reset-timestamps? and honor it. Ludovic Courtès
2018-06-14database: Remove extra SQL parameter in 'update-or-insert'....* guix/store/database.scm (update-or-insert): Remove extra #:path parameter. Ludovic Courtès
2018-06-14deduplicate: Fix a couple of thinkos....* guix/store/deduplication.scm (get-temp-link): Turn 'args' in the 'catch' handler into a rest argument. (deduplicate): Use 'lstat' instead of 'file-is-directory?' to properly handle symlinks. When iterating over the result of 'scandir', exclude the ".links" sub-directory. * tests/store-deduplication.scm ("deduplicate"): Create sub-directories and call 'deduplicate' directly on STORE. Ludovic Courtès
2018-06-14database: 'register-path' creates the database directory if needed....* guix/store/database.scm (register-path): Call 'mkdir-p'. Ludovic Courtès
2018-06-14database: Provide a way to specify the schema location....* guix/store/database.scm (sqlite-register): Add #:schema. Parameterize 'sql-schema' based on this. (register-path): Add #:schema and pass it to 'sqlite-register'. Ludovic Courtès
2018-06-14database: Fail registration when encountering unregistered references....* guix/store/database.scm (add-reference-sql): Remove nested SELECT. (add-references): Expect REFERENCES to be a list of ids. (sqlite-register): Call 'path-id' for each of REFERENCES and pass it to 'add-references'. * tests/store-database.scm ("register-path with unregistered references"): New test. Ludovic Courtès
2018-06-14database: 'with-database' can now initialize new databases....* nix/libstore/schema.sql: Rename to... * guix/store/schema.sql: ... this. * Makefile.am (nobase_dist_guilemodule_DATA): Add it. * nix/local.mk (%D%/libstore/schema.sql.hh): Adjust accordingly. * guix/store/database.scm (sql-schema): New variable. (sqlite-exec, initialize-database, call-with-database): New procedures. (with-database): Rewrite in terms of 'call-with-database'. * tests/store-database.scm ("new database"): New test. * guix/self.scm (compiled-guix)[*core-modules*]: Add 'schema.sql' to #:extra-files. Ludovic Courtès