| Age | Commit message (Expand) | Author |
|---|
| 2022-11-24 | guix: Upgrade to Bioconductor 3.16.•••* guix/build-system/r.scm (bioconductor-uri): Bump Bioconductor version to
3.16.
* guix/import/cran.scm (%bioconductor-version): Same.
| zimoun |
| 2022-11-16 | import/cran: Add package mapping for freetype.•••* guix/import/cran.scm (transform-sysname): Map "freetype2" to "freetype".
| Ricardo Wurmus |
| 2022-11-11 | import/cran: Add package name mapping for "booktabs".•••* guix/import/cran.scm (transform-sysname): Add mapping for "booktabs".
| Ricardo Wurmus |
| 2022-11-11 | import/cran: Add more strings to the list of invalid packages.•••* guix/import/cran.scm (invalid-packages): Add "c++", "c++17", and
"posix.1-2001" to list of invalid packages.
| Ricardo Wurmus |
| 2022-09-28 | import/cran: Process more complex license strings.•••* guix/import/cran.scm (string->license): Add more match clauses.
(string->licenses): Split license conjunctions at "|" and apply
string->license on each license.
(description->package): Use string->licenses.
| Ricardo Wurmus |
| 2022-09-28 | import/cran: Use beautify-synopsis.•••* guix/import/cran.scm (description->package): Use beautify-synopsis.
| Ricardo Wurmus |
| 2022-09-28 | import/cran: Transform external package names to Guix names.•••* guix/import/cran.scm (transform-sysname): New procedure.
(description->package): Use it on inputs that are derived from "sysdepends".
| Ricardo Wurmus |
| 2022-09-28 | import/cran: Add more strings to invalid-packages.•••* guix/import/cran.scm (invalid-packages): Add none, windows, and xcode.
| Ricardo Wurmus |
| 2022-09-20 | import/cran: description->package: Use COND and computed booleans.•••* guix/import/cran.scm (description->package): Use COND with previously
computed booleans instead of using CASE on REPOSITORY.
| Ricardo Wurmus |
| 2022-09-20 | import/cran: download: Accept optional REF argument.•••* guix/import/cran.scm (download): Accept REF argument for git downloads.
| Ricardo Wurmus |
| 2022-05-28 | guix: Upgrade to Bioconductor 3.15.•••* guix/build-system/r.scm (bioconductor-uri): Bump Bioconductor version to
3.15.
* guix/import/cran.scm (%bioconductor-version): Same.
| Ricardo Wurmus |
| 2022-03-07 | import: cran: Return multiple values for unknown packages.•••Partly fixes <https://bugs.gnu.org/44115>.
* guix/import/pypi.scm (cran->guix-package): Return 'values'.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| zimoun |
| 2022-01-20 | guix: import/cran: Cast booleans.•••This is needed due to a change in file-hash*.
* guix/import/cran.scm (description->package): Ensure that GIT? and HG? are
booleans.
| Ricardo Wurmus |
| 2022-01-06 | import: Factorize file hashing.•••* guix/import/cran.scm (vcs-file?, file-hash): Remove procedures.
(description->package): Use 'file-hash*' instead.
* guix/import/elpa.scm (vcs-file?, file-hash): Remove procedures.
(git-repository->origin, elpa-package->sexp): Use 'file-hash* instead'.
* guix/import/go.scm (vcs-file?, file-hash): Remove procedures.
(git-checkout-hash): Use 'file-hash*' instead.
* guix/import/minetest.scm (file-hash): Remove procedure.
(make-minetest-sexp): Use 'file-hash*' instead.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| Sarah Morgensen |
| 2021-11-17 | Merge branch 'master' into core-updates-frozen | Ludovic Courtès |
| 2021-11-11 | import: cran: Allow imports of a specific version.•••* guix/import/cran.scm (download): Handle the case where URL is a list.
(fetch-description-from-tarball): New procedure.
(fetch-description): Add #:version parameter. Honor it when REPOSITORY
is 'cran. Use 'fetch-description-from-tarball' when REPOSITORY is
'bioconductor.
(description->package): SOURCE-URL may now be a list.
(cran->guix-package): Pass VERSION to 'fetch-description'.
(cran-recursive-import): Add #:version parameter.
* guix/scripts/import/cran.scm (guix-import-cran): Expect a spec rather
than a mere package name.
* doc/guix.texi (Invoking guix import): Document it.
| Ludovic Courtès |
| 2021-11-08 | Merge remote-tracking branch 'origin/master' into core-updates-frozen | Efraim Flashner |
| 2021-11-07 | guix: Upgrade to Bioconductor 3.14.•••* guix/build-system/r.scm (bioconductor-uri): Bump Bioconductor version to
3.14.
* guix/import/cran.scm (%bioconductor-version): Same.
| Ricardo Wurmus |
| 2021-10-31 | Merge remote-tracking branch 'origin/master' into core-updates-frozen | Efraim Flashner |
| 2021-10-28 | import: cran: Use the standard diagnostic procedures.•••* guix/import/cran.scm (bioconductor-packages-list)
(fetch-description): Use 'warning' instead of 'format'.
| Ludovic Courtès |
| 2021-07-11 | import: cran: Emit new-style package inputs.•••* guix/import/cran.scm (format-inputs): Emit symbols or
'specification->package' calls.
(maybe-inputs): Wrap in 'list' instead of 'quasiquote'.
* tests/cran.scm ("description->package"): Adjust accordingly.
| Ludovic Courtès |
| 2021-06-05 | guix: Update to Bioconductor 3.13.•••* guix/build-system/r.scm (bioconductor-uri): Update version.
* guix/import/cran.scm (%bioconductor-version): Update.
| Ricardo Wurmus |
| 2021-03-01 | import/cran: Fix detection of Fortran files.•••This fixes a bug whereby the Guix importer considers files like .f.* to be
Fortran files.
The expression "\\.f(90|95)?" would match a lot of files containing ".f"
although they are not Fortran files. Instead we should only consider files
with this *suffix*.
* guix/import/cran.scm (directory-needs-fortran?): Only check for suffixes.
Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
| Mădălin Ionel Patrașcu |
| 2021-01-20 | import/cran: Add more invalid package names to ignore.•••* guix/import/cran.scm (invalid-packages): Add more names.
| Ricardo Wurmus |
| 2020-12-22 | import/cran: Add input style "specification".•••* guix/import/cran.scm (%input-style): New parameter.
(format-inputs): Use it.
* guix/scripts/import/cran.scm (guix-import-cran): Set the %input-style
parameter.
(%options): Add "--style" option.
* doc/guix.texi (Invoking guix import): Document it.
| Ricardo Wurmus |
| 2020-12-15 | import: 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 |
| 2020-12-12 | import/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 |
| 2020-12-09 | import: 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 |
| 2020-12-04 | import/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 |
| 2020-12-02 | import: utils: 'recursive-import' accepts an optional version parameter.•••This adds a key VERSION to 'recursive-import' and moves the parameter REPO to
a key. This also changes all the places that rely on 'recursive-import'.
* guix/import/utils.scm (recursive-import): Add the VERSION key. Make REPO a
key.
(package->definition): Add optional 'append-version?'.
* guix/scripts/import/crate.scm (guix-import-crate): Add the VERSION key.
* guix/import/crate.scm (crate->guix-package): Add the VERSION key.
(crate-recursive-import): Pass VERSION to recursive-import, remove now
unnecessary code.
* guix/import/cran.scm (cran->guix-package, cran-recursive-import): Change the
REPO parameter to a key.
* guix/import/elpa.scm (elpa->guix-package, elpa-recursive-import): Likewise.
* guix/import/gem.scm (gem->guix-package, recursive-import): Likewise.
* guix/import/opam.scm (opam-recurive-import): Likewise.
* guix/import/pypi.scm (pypi-recursive-import): Likewise.
* guix/import/stackage.scm (stackage-recursive-import): Likewise.
* guix/scripts/import/cran.scm (guix-import-cran): Likewise.
* guix/scripts/import/elpa.scm (guix-import-elpa): Likewise.
* tests/elpa.scm (eval-test-with-elpa): Likewise.
* tests/import-utils.scm (recursive-import): Likewise.
Co-authored-by: Hartmut Goebel <h.goebel@crazy-compilers.com>
| Martin Becze |
| 2020-07-03 | upstream: Define 'url-predicate' and use it.•••* guix/upstream.scm (url-predicate): New procedure.
(url-prefix-predicate): Define in terms of 'url-predicate'.
* guix/import/cpan.scm (cpan-package?): Use 'url-predicate'.
* guix/import/cran.scm (cran-package?)
(bioconductor-package?)
(bioconductor-data-package?)
(bioconductor-experiment-package?): Likewise.
* guix/import/crate.scm (crate-package?): Likewise.
* guix/import/elpa.scm (package-from-gnu.org?): Likewise.
* guix/import/hackage.scm (hackage-package?): Likewise.
* guix/import/pypi.scm (pypi-package?): Likewise.
* guix/import/gem.scm (gem-package?): Use 'url-prefix-predicate'.
| Ludovic Courtès |
| 2020-06-13 | guix: Update to Bioconductor 3.11.•••* guix/build-system/r.scm (bioconductor-uri): Use new URL.
* guix/import/cran.scm (%bioconductor-version): Update to 3.11.
| Ricardo Wurmus |
| 2020-05-13 | guix: cran: Add missing default R package.•••* guix/import/cran.scm (default-r-packages): Add "datasets" to the list of
default R packages.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| pimi |
| 2020-03-25 | import/cran: Import missing module.•••This is a follow-up to commit b005c240bb5e436ffe9d55c2dd75c9af85aa0fdd.
Reported-by: Ludovic Courtès <ludo@gnu.org>
* guix/import/cran.scm: Import (guix ui) module.
| Ricardo Wurmus |
| 2020-03-25 | import/cran: Support importing from Mercurial repositories.•••* guix/import/cran.scm (download): Accept keyword #:method; add case for hg
method.
(fetch-description): Handle hg repository.
(description->package): Add cases for hg repositories and update call of
DOWNLOAD procedure.
(cran->guix-package): Retry importing from Bioconductor when hg import failed.
| Ricardo Wurmus |
| 2020-03-07 | import/cran: Add vignette builder to native inputs.•••* guix/import/cran.scm (needs-knitr?): New procedure.
(description->package): Use it.
| Ricardo Wurmus |
| 2020-01-16 | import: cran: Avoid uses of '@@' in the tests.•••* guix/import/cran.scm (description->alist, description->package): Export.
<top level>: Set! 'listify'.
* tests/cran.scm (description-alist, "description->package"): Remove use
of '@@' to access the relevant bindings.
| Ludovic Courtès |
| 2020-01-03 | import: cran: Fix file descriptor leak.•••Fixes <https://bugs.gnu.org/38836>.
Reported by Ricardo Wurmus <rekado@elephly.net>.
* guix/import/cran.scm (bioconductor-packages-list): Close the port
returned by 'http-fetch/cached'.
(fetch-description): Likewise.
| Ludovic Courtès |
| 2019-12-15 | guix: Upgrade to Bioconductor 3.10.•••* guix/build-system/r.scm (bioconductor-uri): Switch to version 3.10.
* guix/import/cran.scm (%bioconductor-version): Same.
| Ricardo Wurmus |
| 2019-12-14 | import: cran: Recognize LGPL 2.1+.•••* guix/import/cran.scm (string->license): Add case for lgpl2.1+.
| Ricardo Wurmus |
| 2019-12-11 | import: utils: 'recursive-import' returns packages in topological order.•••* 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.
| Ludovic Courtès |
| 2019-09-16 | import/cran: Export %bioconductor-version.•••* guix/import/cran.scm (%bioconductor-version): Export it.
| Ricardo Wurmus |
| 2019-09-02 | import: cran: Only use the git import with what looks like a URL.•••* guix/import/cran.scm (fetch-description): Abort if the argument does not
look like a URL.
| Ricardo Wurmus |
| 2019-09-02 | import: cran: Retry failed git imports on Bioconductor.•••* guix/import/cran.scm (cran->guix-package): Retry failed git imports on
Bioconductor.
| Ricardo Wurmus |
| 2019-08-29 | import: cran: Add support for git repositories.•••* guix/import/cran.scm (vcs-file?): New procedure.
(download): Support downloading from git.
(fetch-description): Add a clause for the 'git repository type.
(files-match-pattern?): New procedure.
(tarball-files-match-pattern?): Implement in terms of FILES-MATCH-PATTERN?.
(directory-needs-fortran?, directory-needs-zlib?,
directory-needs-pkg-config?): New procedures.
(needs-fortran?, needs-zlib?, needs-pkg-config?): Rename these procedures...
(tarball-needs-fortran?, tarball-needs-zlib?, tarball-needs-pkg-config?):
...to this, and use them.
(file-hash): New procedure.
(description->package): Handle the 'git repository type.
* guix/import/utils.scm (package->definition): Handle package expression
inside of a let.
* guix/scripts/import.scm (guix-import): Handle let expressions.
* doc/guix.texi (Invoking guix import): Document it.
| Ricardo Wurmus |
| 2019-08-16 | import: cran: Support experiment and annotation packages.•••* guix/import/cran.scm (%bioconductor-packages-list-url): Replace variable...
(bioconductor-packages-list-url): ...with this procedure.
(bioconductor-packages-list): Accept optional TYPE argument.
(latest-bioconductor-package-version): Same.
(fetch-description): Determine package type and use it in calls to
LATEST-BIOCONDUCTOR-PACKAGE-VERSION and BIOCONDUCTOR-URI.
(description->package): Pass package type to URI helper procedure; include
package type in annotation or experiment packages from Bioconducter.
| Ricardo Wurmus |
| 2019-05-28 | import: cran: Ignore invalid packages from the system requirements.•••* guix/import/cran.scm (description->package): Filter invalid packages from
the list of system requirements.
| Ricardo Wurmus |
| 2019-05-23 | import: cran: Ignore invalid packages.•••* guix/import/cran.scm (invalid-packages): New variable.
(description->package): Use it.
| Ricardo Wurmus |
| 2019-05-06 | guix: Update to Bioconductor 3.9.•••* guix/build-system/r.scm (bioconductor-uri): Use 3.9 archive URL.
* guix/import/cran.scm (%bioconductor-version): Update to 3.9.
| Ricardo Wurmus |
| 2019-01-12 | import: cran: Suggest input changes.•••* guix/import/cran.scm (latest-cran-release, latest-bioconductor-release):
Return input-changes.
| Ricardo Wurmus |
