* guix/scripts/lint.scm (check-patch-file-names): Don't check if patches
start with the package full name since matching the package name (which
is a prefix of the full name) is sufficient.
* guix/import/cran.scm (%bioconductor-updater,
latest-bioconductor-release, bioconductor-package?): New procedures.
(cran->guix-package): Support repositories other than CRAN.
(%bioconductor-url, %bioconductor-svn-url): New variables.
(description->package): Update signature to distinguish between packages
from different repositories.
(latest-release): Rename procedure ...
(latest-cran-release): ... to this.
(cran-package?): Do not assume all R packages are available on CRAN.
* tests/cran.scm: Update tests.
* guix/scripts/import/cran.scm: Add "--archive" option and default to
CRAN.
* guix/scripts/refresh.scm (%updaters): Add "%bioconductor-updater".
* doc/guix.texi: Document Bioconductor importer and updater.
* guix/scripts/package.scm (find-packages-by-description): Change 'rx'
parameter to 'regexps'.
[matches-all?, matches-one?]: New procedures.
Use them.
(process-query): Collect regexps from all 'search' queries, and pass
them to 'find-packages-by-description'.
* tests/guix-package.sh: Add tests.
* doc/guix.texi (Invoking guix package): Document it.
Before that it would include #f for most origins since that the default
value of 'origin-patch-guile'.
* guix/scripts/graph.scm (bag-node-edges): When 'origin-patch-guile'
returns #f, use (default-guile).
* tests/graph.scm ("bag DAG, including origins"): Check for an edge from
O to (default-guile).
Fixes <http://bugs.gnu.org/22280>.
Reported by Leo Famulari <leo@famulari.name>.
* guix/scripts/graph.scm (%bag-emerged-node-type)[edges]: Mimic
%BAG-NODE-TYPE. This is a followup to 38b92da.
* guix/scripts/build.scm (options/resolve-packages): Remove.
(options->things-to-build, transform-package-source): New procedure.
(%transformations): New variable.
(options->transformation): New procedure.
(options->derivations): Rewrite to use 'options->things-to-build' and
'options->transformation'.
* guix/scripts/package.scm (options->upgrade-predicate)
(store-item->manifest-entry): New procedures.
* guix/scripts/package.scm (options->installable): Use them. Remove the
'packages-to-upgrade' and 'packages-to-install' variables by getting rid
of a level of indirection.
* guix/scripts/package.scm (build-and-use-profile): New procedure.
Adapted and moved from...
(guix-package)[process-actions]: ... here. Adjust call sites.
This is a followup to b68d2db, which added a check for updaters at
macro-expansion time. The problem is that, when running 'guix pull',
Guile-JSON is found, so the PyPi updater (say) is added to %UPDATERS,
but then at run time Guile-JSON might be missing.
Reported by orbea on #guix.
* guix/scripts/refresh.scm (maybe-updater): Rewrite as 'syntax-rules'.
Produce code that checks conditions at run time.
(list-updaters): Update docstring.
This fixes a bug whereby some options, such as #:substitute-urls, would
be passed to the daemon too late to have an effect.
* guix/scripts/environment.scm (build-inputs): Remove call to
'set-build-options-from-command-line*'.
(guix-environment): Add call to 'set-build-options-from-command-line' as
early as possible.
* guix/scripts/lint.scm (patch-file-name): New procedure.
(check-vulnerabilities): Use it to filter out patched vulnerabilities.
* tests/lint.scm ("cve: one patched vulnerability"): New test.
Suggested by Hynek Urban <hynek.urban@gmail.com>.
* guix/scripts/substitute.scm (fetch-narinfos): Move body to...
[do-fetch]: ... here. New procedure.
Emit a warning when CACHE-INFO's prefix does not match.
As measured with:
time sh -c 'for i in `seq 1 10` ; do guix package --search-paths ; done'
On my machine, when running:
strace -o ,,s guix package --search-paths
the number returned by:
grep -E '^(open|l?stat).*\.go' ,,s | wc -l
drops from 1610 to 837.
* guix/scripts/package.scm: Remove two unnecessary #:use-module forms.
Autoload (gnu packages ...) modules.
Fixes <http://bugs.gnu.org/21991>.
Reported by Jan Synáček <jan.synacek@gmail.com>.
* guix/scripts/download.scm (guix-download): Call 'leave' when OPTS does
not contain an 'argument' key.
Fixes <http://bugs.gnu.org/21958>.
* guix/scripts/environment.scm (status->exit-code): New procedure.
(exit/status, primitive-exit/status): Use it.
* tests/guix-environment-container.sh: Add test.
* guix/scripts/lint.scm (probe-uri): Add #:timeout parameter. Pass it
to 'open-connection-for-uri' and 'ftp-open'.
(validate-uri): Pass #:timeout 3 to 'probe-uri'.
Fixes <http://bugs.gnu.org/21817>.
Reported by Petter Berntsen <petter@mykolab.ch>.
* guix/scripts/gc.scm (guix-gc)[assert-no-extra-arguments]: New
procedure.
Use it for actions 'collect-garbage', 'optimize', and 'verify'.
* tests/guix-gc.sh: Add tests.
Partly fixes <http://bugs.gnu.org/20255>.
* guix/scripts/package.scm (search-path-environment-variables): Change
'profile' to 'profiles'; expect it to be a list.
(display-search-paths): Likewise.
(%default-options): Remove 'profile' entry.
(%options) <--profile>: Keep previous values associated with 'profile'
in RESULT.
(guix-package)[process-actions, process-query]: Handle the possible
lack of 'profile' pair in OPTS.
Reported by Sleep_Walker and Mathieu Lirzin <mthl@gnu.org>.
* guix/scripts/refresh.scm (maybe-updater, list-updaters): New macros.
(%updaters): Use 'list-updaters' instead of 'list'. Make
%PYPI-UPDATER conditional.
Reported by Paul van der Walt <paul@denknerd.org>
in <http://bugs.gnu.org/21829>.
* guix/scripts/import/hackage.scm (guix-import-hackage): Add missing
argument in call to 'leave'.
* guix/scripts/container/exec.scm (partition-args): Reimplement such
that all args up to and including the PID are returned as the first of
the two values.
Fixes <http://bugs.gnu.org/21068>.
Reported by Germano Gabbianelli <tyrion.mx@gmail.com>
and Mark H Weaver <mhw@netris.org>.
* guix/scripts/system.scm (perform-action): Always add GRUB.CFG to DRVS
for 'init' and 'reconfigure'.
Co-authored-by: Mark H Weaver <mhw@netris.org>
* gnu/services.scm (system-derivation): New procedure.
(system-service-type): New variable.
(boot-script-entry): New procedure.
(boot-service-type): Extend SYSTEM-SERVICE-TYPE.
(etc-entry): New procedure.
(etc-service-type): Extend SYSTEM-SERVICE-TYPE.
(fold-services): Change default #:target-type to SYSTEM-SERVICE-TYPE.
* gnu/system.scm (operating-system-directory-base-entries): New procedure.
(essential-services): Use it. Add an instance of
SYSTEM-SERVICE-TYPE.
(operating-system-boot-script): Pass #:target-type to 'fold-services'.
(operating-system-derivation): Rewrite in terms of 'fold-services'.
* gnu/system/linux-container.scm (system-container): Remove.
(container-script): Use 'operating-system-derivation'.
* guix/scripts/system.scm (export-extension-graph): Replace
BOOT-SERVICE-TYPE by SYSTEM-SERVICE-TYPE.
* doc/images/service-graph.dot: Add 'system' node and edges.
* doc/guix.texi (Service Composition): Mention SYSTEM-SERVICE-TYPE.
(Service Reference): Document it. Update 'fold-services'
documentation.
* guix/scripts/environment.scm (%default-options): Remove 'exec'
association.
(guix-environment): If the user didn't specify a command, use the
default shell, or use /bin/sh when a container is requested.
This patch changes the --ad-hoc flag to be positional. That is, the
packages that appear before --ad-hoc are interpreted as packages whose
inputs should be in the environment; the packages that appear after are
interpreted as packages to be directly added to the environment.
* guix/scripts/environment.scm (tag-package-arg, compact): New
procedures.
(%options): Tweak the handlers for --load and --expression options.
(options/resolve-packages): Preserve package mode tag.
(parse-args): Tweak argument handler to use package tagging procedure.
(guix-environment): Apply ad-hoc behavior on a per package basis.
* tests/guix-environment.sh: Add test.
* doc/guix.texi ("invoking guix environment"): Document new behavior of
--ad-hoc.
Fixes <http://bugs.gnu.org/21773>.
Reported by Jan Synáček <jan.synacek@gmail.com>.
* guix/ui.scm (make-regexp*): New procedure.
* guix/scripts/package.scm (options->installable, guix-package): Use it
when processing user-provided regexps.
Partly fixes <http://bugs.gnu.org/20217>.
* guix/store.scm (set-build-options): Change #:substitute-urls to
default to #f. Send the 'substitute-urls' pair only if
SUBSTITUTE-URLS is true.
* guix/scripts/build.scm (set-build-options-from-command-line): Do not
default to %DEFAULT-SUBSTITUTE-URLS for #:substitute-urls.
* guix/scripts/size.scm (%default-options): Remove 'substitute-urls'.
* guix/scripts/substitute.scm (lookup-narinfos/diverse): New procedure.
(lookup-narinfo): Use it.
(process-query): Change #:cache-url to #:cache-urls.
[valid?]: Remove 'narinfo?' check, which is no longer necessary.
Use 'lookup-narinfos/diverse' instead of 'lookup-narinfos'.
(process-substitution): Change #:cache-url to #:cache-urls.
(%cache-url): Rename to...
(%cache-urls): ... this. Turn into a list.
(guix-substitute): Remove 'getaddrinfo' test with early exit. Adjust
calls to 'process-query' and 'process-substitution'.
* tests/substitute.scm: Change '%cache-url' to '%cache-urls'.
* guix/scripts/substitute.scm (lookup-narinfos): Filter out #f values
from CACHED, such that the end result is exactly a list of narinfos,
not interspersed with #f.
* guix/scripts/challenge.scm (discrepancies): Assume REMOTE is a list of
narinfos.
* guix/scripts/package.scm (delete-generations): Use
'delete-generation*' instead of 'delete-generation'.
(guix-package)[process-actions]: Use 'roll-back*' instead of
'roll-back' and 'switch-to-generation*' instead of
'switch-to-generation'.
(link-to-empty-profile, switch-to-generation,
switch-to-previous-generation, roll-back, delete-generation): Move
to...
* guix/profiles.scm: ... here. Adjust to not print messages and to
return values that can be used by user interfaces.
* guix/ui.scm (display-generation-change, roll-back*,
switch-to-generation*, delete-generation*): New procedures.
* guix/scripts/system.scm (<boot-parameters>): New record type.
(read-boot-parameters): New procedure.
(previous-grub-entries)[system->grub-entry]: Use it.
* guix/scripts/package.scm (guix-package)[process-query](list-generations):
Move part of the body to 'delete-generation' and
'display-profile-content'.
* guix/ui.scm (display-generation, display-profile-content): New
procedures.
* guix/scripts/system.scm (specification->file-system-mapping): Move from
here...
* guix/ui.scm (specification->file-system-mapping): ... to here.
* guix/scripts/enviroment.scm (show-help): Show help for new options.
(%options): Add --container --network, --expose, and --share options.
(%network-configuration-files): New variable.
(launch-environment, launch-environment/container, requisites*,
inputs->requisites): New procedures.
(guix-environment): Spawn new process in a container when requested.
* doc/guix.texi (Invoking guix environment): Document it.
* tests/guix-environment-container.sh: New file.
* Makefile.am (SH_TESTS): Add it.
* guix/scripts/refresh.scm (%options, show-help): Add --type.
(lookup-updater): New procedure.
(update-package): Add 'updaters' parameter and honor it.
(guix-refresh)[options->updaters]: New procedure.
Use it, and honor --type.
* guix/gnu-maintenance.scm (<gnu-release>): Remove.
(coalesce-releases): Move to upstream.scm. Rename to
'coalesce-sources'; adjust callers.
(releases, latest-release): Return <upstream-source> objects instead
of <gnu-release> objects.
(latest-release*, non-emacs-gnu-package?): New procedures.
(gnu-release-archive-types): Remove.
(%gnu-updater): New variable.
(package-update-path, download-tarball, package-update,
update-package-source): Move to...
* guix/upstream.scm: ... here. New file.
* Makefile.am (MODULES): Add it.
* po/guix/POTFILES.in: Replace gnu-maintenance.scm with upstream.scm.
* guix/scripts/refresh.scm (%updaters): New variable.
(update-package): Adjust to new 'package-update' interface.
(guix-refresh): Adjust to new 'package-update-path'. Remove
'false-if-exception' around it.
* guix/scripts/archive.scm (show-help, %options): Add --extract.
(guix-archive): Honor it.
* tests/guix-archive.sh: Test it.
* doc/guix.texi (Invoking guix archive): Document it.
* guix/scripts/system.scm (perform-action): Add #:derivations-only?
parameter and honor it.
(show-help, %options): Add '--derivation'.
(guix-system): Pass #:derivations-only? to 'perform-action'.
* tests/guix-system.sh: Test it.
* doc/guix.texi (Invoking guix system): Document it.
This allows for direct program invokation without needing a shell to act
as a command interpreter.
* guix/scripts/environment.scm (%default-shell): New variable.
(show-help): Adjust description. Remove '--exec' reference.
(%default-options): Use '%default-shell'.
(%options): Adjust '--exec' to run command via the default shell.
(parse-args): New procedure.
(guix-environment): Use 'parse-args'. Use 'system*' instead of
'system'.
* tests/guix-environment.sh: Add test for '--' command invokation.
* doc/guix.texi ("Invoking guix environment"): Use new syntax. Remove
'--exec' documentation.
A client closing the connection while reading from a /nar URL would
leave an open file descriptor in the server. This patch fixes it.
* guix/scripts/publish.scm (swallow-EPIPE): New macro.
(http-write): Use it around 'write-file' call.
Fixes a regression introduced in 5d8d8f3.
* guix/scripts/lint.scm (check-description-style): When no exception is
thrown in 'check-texinfo-markup', return the rendered description.
* guix/scripts/lint.scm (check-description-style): Set 'field' parameter
when emitting a warning in 'check-texinfo-markup'. Catch any error
that may occur in during the 'texi->plain-text' conversion. This is a
followup to commit 2748ee3.
* guix/scripts/lint.scm (%hanging-paren-rx): New variable.
(report-lone-parentheses): New procedure.
(%formatting-reporters): Use it.
* tests/lint.scm ("formatting: lonely parentheses"): New test.
* guix/build/download.scm
(string-pad-middle, store-url-abbreviation, store-path-abbreviation):
New procedures.
(progress-proc): Add #:abbreviation parameter and use it. Generate a
better indeterminate progress string.
* guix/scripts/substitute.scm (assert-valid-narinfo): Add newlines to output.
(process-substitution): Use byte-count->string and store-path-abbreviation.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
Fixes <http://bugs.gnu.org/21451>.
Reported by Steve Sprang <steve.sprang@gmail.com>.
* guix/scripts/system.scm (guix-system)[option-arguments]: Error out
when ACTION is #f.
* guix/scripts/build.scm (%default-log-urls): New variable.
(log-url): New procedure.
(guix-build): Use it.
* doc/guix.texi (Invoking guix build): Document it.
* guix/scripts/publish.scm (narinfo-string): Catch 'system-error' around
'load-derivation' call; return BASE-INFO upon ENOENT. This allows us
to return the narinfo even if DERIVER is missing. Before that, the
exception would be uncaught, leading to 500 Internal Error on the
client side.
* guix/scripts/package.scm (show-help): Add help text for --install-from-file
option.
(%options): Add --install-from-file option.
* tests/guix-package.sh: Test it.
* doc/guix.texi ("invoking guix package"): Document it.
* doc/package-hello.scm: New file.
* doc.am (EXTRA_DIST): Add it.
This removes all I/O, which obviously makes things faster.
* guix/scripts/size.scm (file-size, store-item-exists?): Remove.
(query-path-info*): New procedure.
(file-size*): Rename to...
(file-size): ... this; adjust caller. Use 'query-path-info*' instead of
'file-size'.
Reported by Eric Dvorsak <eric@dvorsak.fr> on #guix.
* guix/scripts/import/elpa.scm (%default-options): Remove redundant
quote which led to an error if --archive option was not specified.
Previously, before replying to a /nar/* request, 'guix publish' would first
build up the whole nar into memory (as a consequence of
<http://bugs.gnu.org/21093>), which obviously doesn't scale.
* guix/scripts/publish.scm (render-nar): Return STORE-PATH instead of a
procedure that calls 'write-file'.
(sans-content-length): New procedure.
(http-write): For 'x-nix-archive', don't call '%http-write'. Instead, call
'write-file' right from here, using BODY as the file name.
* guix/scripts/publish.scm (%http-write): New variable.
(http-write): New procedure.
(concurrent-http-server): New variable.
(run-publish-server): Use it.
* gnu/system.scm (<operating-system>)[kernel-arguments]: New field.
(operating-system-grub.cfg): Honor it.
(operating-system-parameters-file): Add 'kernel-arguments' to the parameters
file.
* guix/scripts/system.scm (previous-grub-entries)[system->grub-entry]: Read
the 'kernel-arguments' field of the parameters file, when available.
* gnu/system/vm.scm (system-qemu-image/shared-store-script):
Use (operating-system-kernel-arguments os) in '-append'.
* doc/guix.texi (operating-system Reference): Document it.
* guix/scripts/substitute.scm (display-narinfo-data,
process-query, process-substitution): New procedures. Code moved from...
(guix-substitute): ... here. Use them.
* guix/scripts/substitute.scm (or*): New macro.
(%cache-url): Honor "untrusted-substitute-urls".
* guix/tests.scm (%test-substitute-urls): New variable.
(open-connection-for-tests): Use it.
* tests/derivations.scm ("derivation-prerequisites-to-build and substitutes",
"derivation-prerequisites-to-build and substitutes, non-substitutable
build", "derivation-prerequisites-to-build and substitutes, local build"):
Pass it to 'set-build-options'.
* tests/guix-daemon.sh: Likewise.
* tests/store.scm ("substitute query, alternating URLs"): New test.
("substitute query", "substitute", "substitute + build-things with output
path", "substitute, corrupt output hash", "substitute --fallback"): Pass
#:substitute-urls to 'set-build-options'.
This ensures that switching between different substitute servers doesn't lead
to a polluted narinfo cache.
* guix/scripts/substitute.scm (narinfo-cache-file): Add 'cache-url'
parameter. Add the base32 of CACHE-URL as a sub-directory under
%NARINFO-CACHE-DIRECTORY. Update callers.
(cached-narinfo): Likewise. Call 'mkdir-p' on the dirname of the cache
file. Update callers.
(remove-expired-cached-narinfos): Add 'directory' parameter and use it
instead of %NARINFO-CACHE-DIRECTORY.
(narinfo-cache-directories): New procedure.
(maybe-remove-expired-cached-narinfo): Call 'remove-expired-cached-narinfos'
for each item returned by 'narinfo-cache-directories'.
* guix/scripts/substitute.scm (<cache>): Rename to...
(<cache-info>): ... this.
(open-cache): Rename to...
(download-cache-info): ... this. Return a <cache-info> or #f.
(open-cache*): Remove.
(cache-narinfo!): Take a URL instead of a <cache> as the first parameter.
(fetch-narinfos): Likewise. Call 'download-cache-info'. Remove use of
'force'.
(guix-substitute): Replace calls to 'open-cache*' with %CACHE-URL.
* guix/scripts/lint.scm (guix): Remove duplicated lines for using
'srfi-34' and 'srfi-35' modules. These lines were introduced twice by
commits b210b35 and 002c57c.
Reported
at <http://lists.gnu.org/archive/html/guix-devel/2015-07/msg00119.html>.
* guix/scripts/substitute.scm (http-multiple-get): When RESP has "Connection:
close", consume HEAD anyway; always call PROC to read from BODY.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
This fixes two problems:
1. Load errors would print an ugly backtrace.
2. When FILE was an absolute name, 'load' was passed an incorrect file
name.
* guix/scripts/environment.scm (options/resolve-packages): Use 'load*' instead
of 'load'.
Mathieu Lirzin