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151 Commits

Author SHA1 Message Date
Ludovic Courtès
90eaa9419a
import: cpan: Load (gnu packages perl) lazily. 
* guix/import/cpan.scm: Remove dependency on (gnu packages perl).
(perl-package): New procedure.
(%corelist, core-module?): Use it instead of referring to 'perl'.
 2017-10-10 23:12:04 +02:00
Ludovic Courtès
b719ddbbbb
import: pypi: Remove unneeded import. 
* guix/import/pypi.scm: Remove unneeded import.
 2017-10-10 23:12:03 +02:00
Ricardo Wurmus
5e892bc365
import: Add generic data to package converter. 
* guix/import/utils.scm (build-system-modules, lookup-build-system-by-name,
specs->package-lists, source-spec->object, alist->package): New procedures.
* tests/import-utils.scm: Add tests for alist->package.
 2017-09-28 13:10:11 +02:00
Ricardo Wurmus
68a91a183b
import: Add package->code. 
* guix/import/print.scm: New file.
* tests/print.scm: New file.
* Makefile.am (SCM_TESTS): Add new test file.
(MODULES): Add print.scm.
 2017-09-28 13:10:10 +02:00
Ludovic Courtès
c1d8b3b3b5
upstream: Add new GNOME updater. 
Partly fixes <https://bugs.gnu.org/28159>.
Reported by Hartmut Goebel <h.goebel@crazy-compilers.com>.

* guix/import/gnome.scm: New file.
* Makefile.am (MODULES): Add it.
* guix/gnu-maintenance.scm (latest-gnome-release)
(%gnome-updater): Remove.
 2017-09-26 00:35:06 +02:00
Christopher Baines
01ef804d69
import: cpan: Replace '(package-license perl) with 'perl-license. 
The perl-license definition is intended to avoid circular dependencies, so
use this as a default when importing packages from CPAN.

* guix/import/cpan.scm (string->license): Replace '(package-license perl) with
  'perl-license.
 2017-09-12 23:15:36 +01:00
Ludovic Courtès
e956ae16a4
import: cpan: Updater returns a list of URLs. 
* guix/import/cpan.scm (latest-release): Return a list in the 'urls'
field of 'upstream-source'.
 2017-07-24 17:35:26 +02:00
Ludovic Courtès
94a400beba
import cran: Generate a valid 'license' field for "GPL". 
Fixes <http://bugs.gnu.org/27294>.
Reported by Joshua Sierles <joshua@joshua.si>.

* guix/import/cran.scm (string->license) <"GPL">: Return a quoted list.
 2017-06-26 22:52:06 +02:00
Ricardo Wurmus
afbc94194e
guix: Add texlive importer. 
* guix/import/texlive.scm: New file.
* guix/scripts/import/texlive.scm: New file.
* Makefile.am (MODULES): Add them.
* tests/texlive.scm: New file.
* Makefile.am (SCM_TESTS): Add it.
* guix/scripts/import.scm (importers): Add texlive importer.
* doc/guix.texi (Invoking guix import): Document it.
 2017-06-15 17:03:19 +02:00
Danny Milosavljevic
d1e7ca2df8
import: pypi: Always use pypi.io URL with downcased package name. 
* guix/import/pypi.scm (make-pypi-sexp): Always use pypi.io URL with
downcased package name.
 2017-06-15 09:49:13 +02:00
James Richardson
4679dd6967
import: cpan: Update CPAN importer to use MetaCPAN v1 API. 
* guix/import/cpan.scm (module->dist-name, cpan-fetch): Use metacpan.org
URLs.
* tests/cpan.scm ("cpan->guix-package"): Adjust accordingly.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-06-07 15:06:34 +02:00
Ricardo Wurmus
17a69cf623
import cran: Check if pkg-config is needed. 
* guix/import/cran.scm (needs-pkg-config?): New procedure.
(description->package): Use it.
 2017-05-16 21:43:35 +02:00
Ricardo Wurmus
a0f43208cb
import cran: Refactor "needs-zlib?". 
* guix/import/cran.scm (tarball-files-match-pattern?): New procedure.
(needs-zlib?): Implement in terms of "tarball-files-match-pattern?".
 2017-05-16 21:43:15 +02:00
Ricardo Wurmus
ff8c179ab6
import cran: Export package predicates. 
* guix/import/cran.scm (cran-package?, bioconductor-package?,
bioconductor-data-package?, bioconductor-experiment-package?): Export
procedures.
 2017-05-16 21:42:18 +02:00
Ricardo Wurmus
daaa270ecc
import cran: Add predicate for Bioconductor experiment packages. 
* guix/import/cran.scm (bioconductor-experiment-package?): New variable.
 2017-05-16 21:40:39 +02:00
Ricardo Wurmus
c9ffa91fd3
import cran: Exclude experiment packages in predicate "bioconductor-package?". 
* guix/import/cran.scm (bioconductor-package?): Exclude experiment packages,
because they cannot be updated with the default bioconductor updater.
 2017-05-16 21:40:03 +02:00
Ricardo Wurmus
7c9fcb0825
import cran: Fetch DESCRIPTION files from Github mirror. 
* guix/import/cran.scm (%bioconductor-svn-url): Remove variable.
(bioconductor-mirror-url): New procedure.
(fetch-description): Take a REPOSITORY symbol instead of a BASE-URL string.
(cran->guix-package): Pass REPOSITORY symbol to "fetch-description".
(latest-cran-release, latest-bioconductor-release): Adjust accordingly.
(bioconductor-package?): Update comment about SVN.
 2017-05-16 21:39:06 +02:00
Mathieu Othacehe
22fc581db3
import: pypi: Robustify latest-release. 
* guix/import/pypi.scm (latest-release): Check if pypi-fetch has
  failed. If so return #f, else construct the <upstream-source>.
 2017-05-13 12:40:20 +02:00
Mathieu Othacehe
db427602d8
import: cran: Robustify cran-package?. 
* guix/import/cran.scm (package->upstream-name): Return #f if url
  start and end index could not be determined.
  (cran-package?): Check if the upstream-name can be extracted from
  given package.
* tests/cran.scm: Add "r-minimal is not a cran package" to make sure that
  r-minimal is not detected as a cran package.

This fixes a failure of guix refresh on r-minimal because no
upsteam-name can be determined from ".../R-version.tar.gz" uri.
 2017-05-13 12:40:20 +02:00
Ludovic Courtès
69daee23af
ui: Rename '_' to 'G_'. 
This avoids collisions with '_' when the latter is used as a 'match'
pattern for instance.  See
<https://lists.gnu.org/archive/html/guix-devel/2017-04/msg00464.html>.

* guix/ui.scm: Rename '_' to 'G_'.
* po/guix/Makevars (XGETTEXT_OPTIONS): Adjust accordingly.
* build-aux/compile-all.scm (warnings): Remove 'format'.
* gnu/packages.scm,
gnu/services.scm,
gnu/services/shepherd.scm,
gnu/system.scm,
gnu/system/shadow.scm,
guix/gnupg.scm,
guix/http-client.scm,
guix/import/cpan.scm,
guix/import/elpa.scm,
guix/import/pypi.scm,
guix/nar.scm,
guix/scripts.scm,
guix/scripts/archive.scm,
guix/scripts/authenticate.scm,
guix/scripts/build.scm,
guix/scripts/challenge.scm,
guix/scripts/container.scm,
guix/scripts/container/exec.scm,
guix/scripts/copy.scm,
guix/scripts/download.scm,
guix/scripts/edit.scm,
guix/scripts/environment.scm,
guix/scripts/gc.scm,
guix/scripts/graph.scm,
guix/scripts/hash.scm,
guix/scripts/import.scm,
guix/scripts/import/cpan.scm,
guix/scripts/import/cran.scm,
guix/scripts/import/crate.scm,
guix/scripts/import/elpa.scm,
guix/scripts/import/gem.scm,
guix/scripts/import/gnu.scm,
guix/scripts/import/hackage.scm,
guix/scripts/import/nix.scm,
guix/scripts/import/pypi.scm,
guix/scripts/import/stackage.scm,
guix/scripts/lint.scm,
guix/scripts/offload.scm,
guix/scripts/pack.scm,
guix/scripts/package.scm,
guix/scripts/perform-download.scm,
guix/scripts/publish.scm,
guix/scripts/pull.scm,
guix/scripts/refresh.scm,
guix/scripts/size.scm,
guix/scripts/substitute.scm,
guix/scripts/system.scm,
guix/ssh.scm,
guix/upstream.scm: Use 'G_' instead of '_'.  Most of this change was
obtained by running: "sed -i -e's/(_ "/(G_ "/g' `find -name \*.scm`".
 2017-05-03 16:16:17 +02:00
Roel Janssen
7c3e4660a5
import: Update Bioconductor release to 3.5. 
* guix/import/cran.scm: Change Bioconductor release to 3.5.
 2017-04-28 11:02:26 +02:00
Ricardo Wurmus
5ae63362ae
import cran: Distinguish Bioconductor data packages. 
* guix/import/cran.scm (bioconductor-package?): Exclude Bioconductor
data packages.
(bioconductor-data-package?): New procedure.
 2017-04-05 18:38:51 +02:00
Ludovic Courtès
e1f02f92e9
Replace (compose not PROC) with simpler idioms. 
* gnu/packages/bioinformatics.scm (python-pysam)[arguments] <check>:
Use (negate proc) instead of (compose not proc).
* guix/import/cran.scm (recursive-import): Likewise.
* guix/import/elpa.scm (filter-dependencies): Use 'remove' instead of
'(filter (compose not proc) ...)'.
 2017-03-28 22:15:44 +02:00
Ricardo Wurmus
2dca8b2d51
import cran: Automatically add gfortran and zlib when needed. 
* guix/import/cran.scm (needs-fortran?, needs-zlib?): New procedures.
(description->package): Use them.
 2017-03-28 15:37:47 +02:00
Ricardo Wurmus
aeb64f3cb2
gnu: r: Do not build recommended packages. 
* gnu/packages/statistics.scm (r)[arguments]: Rename phase
"build-recommended-packages-reproducibly" to "build-reproducibly"; add
configure flag "--without-recommended-packages".
* guix/import/cran.scm (default-r-packages): Remove recommended packages.
* gnu/packages/python.scm (python-rpy2)[inputs]: Add r-survival.
* gnu/packages/bioinformatics.scm (r-ape)[propagated-inputs]: Add r-lattice
and r-nlme.
(r-vegan)[propagated-inputs]: Add r-mass.
(r-genefilter)[propagated-inputs]: Add r-survival.
(r-grohmm)[propagated-inputs]: Add r-mass.
(r-bioccheck)[propagated-inputs]: Add r-codetools.
(r-summarizedexperiment)[propagated-inputs]: Add r-matrix.
(r-topgo)[propagated-inputs]: Add r-lattice.
(r-sva)[propagated-inputs]: Add r-mgcv.
(r-raremetals2)[propagated-inputs]: Add r-mass.
(r-vsn)[propagated-inputs]: Add r-lattice.
(r-pcamethods)[propagated-inputs]: Add r-mass.
* gnu/packages/bioinformatics.scm (r-ggplot2)[propagated-inputs]: Add r-mass.
(r-locfit)[propagated-inputs]: Add r-lattice.
(r-coda)[propagated-inputs]: Add r-lattice.
(r-irlba)[propagated-inputs]: Add r-matrix.
(r-glmnet)[propagated-inputs]: Add r-matrix.
(r-e1071)[propagated-inputs]: Add r-class.
(r-spams)[propagated-inputs]: Add r-lattice and r-matrix.
(r-hmisc)[propagated-inputs]: Add r-cluster, r-foreign, r-lattice, r-nnet, and
r-rpart.
(r-zoo)[propagated-inputs]: Add r-lattice.
(r-mixtools)[propagated-inputs]: Add r-boot and r-mass.
(r-flexmix)[propagated-inputs]: Add r-lattice and r-nnet.
(r-prabclus)[propagated-inputs]: Add r-mass.
(r-fpc)[propagated-inputs]: Add r-class, r-cluster, and r-mass.
(r-rcppeigen)[propagated-inputs]: Add r-matrix.
(r-matrixmodels)[propagated-inputs]: Add r-matrix.
(r-lme4)[propagated-inputs]: Add r-mass and r-nlme.
(r-pbkrtest)[propagated-inputs]: Add r-mass and r-matrix.
(r-car)[propagated-inputs]: Add r-mass, r-mgcv, and r-nnet.
(r-tclust)[propagated-inputs]: Add r-cluster.
 2017-03-17 10:14:02 +01:00
Ludovic Courtès
4c0c4db070
utils: Move base16 procedures to (guix base16). 
* guix/utils.scm (bytevector->base16-string, base16-string->bytevector):
Move to...
* guix/base16.scm: ... here.  New file.
* tests/utils.scm ("bytevector->base16-string->bytevector"): Move to...
* tests/base16.scm: ... here.  New file.
* Makefile.am (MODULES): Add guix/base16.scm.
(SCM_TESTS): Add tests/base16.scm.
* build-aux/download.scm, guix/derivations.scm,
guix/docker.scm, guix/import/snix.scm, guix/pk-crypto.scm,
guix/scripts/authenticate.scm, guix/scripts/download.scm,
guix/scripts/hash.scm, guix/store.scm, tests/hash.scm,
tests/pk-crypto.scm: Adjust imports accordingly.
 2017-03-16 22:50:14 +01:00
Federico Beffa
57075ade97
import: stackage: Avoid using (guix ui) in importer code. 
* guix/import/stackage.scm (stackage->guix-package, stackage-lts-info-fetch):
  Raise 'message' condition instead of using 'leave' from (guix ui).
* guix/scripts/import/stackage.scm (guix-import-stackage): Handle conditions.
 2017-02-14 08:38:45 +01:00
Federico Beffa
a4824c60ef
import: hackage: Handle unknown packages gracefully. 
* guix/import/hackage.scm (hackage-fetch): Add 'guard'.
 2017-02-09 19:36:08 +01:00
Federico Beffa
bc5844d149
import: Add stackage importer and updater. 
* guix/import/stackage.scm: New file.
* guix/scripts/import/stackage.scm: New file.
* Makefile.am (MODULES): Add new files.
* guix/scripts/import.scm (importers): Add "stackage".
* guix/scripts/refresh.scm (%updaters): Add %stackage-updater.
* doc/guix.texi (Invoking 'guix import'): Document the importer.
  (Invoking 'guix refresh'): Add stackage to option --type valid values.
* guix/import/hackage.scm (guix-package->hackage-name, hackage-fetch,
  hackage-source-url, hackage-cabal-url, hackage-package?): Export them.
 2017-02-09 19:36:08 +01:00
Federico Beffa
81e0bc1834
import: json: Explicitly ask for JSON data. 
* guix/import/json.scm (json-fetch): Add #:headers to http-fetch call.
 2017-02-09 19:36:04 +01:00
Ludovic Courtès
4eaac4b722
import: pypi: Correctly handle multiple-URL origins. 
Fixes <https://bugs.gnu.org/25635>.
Reported by Sergei Trofimovich <slyfox@inbox.ru>.

* guix/import/pypi.scm (guix-package->pypi-name)[url->pypi-name]: New
procedure.
Rewrite body to match lists in addition to strings.
* tests/pypi.scm ("guix-package->pypi-name, several URLs"): New test.
 2017-02-08 16:17:05 +01:00
Ludovic Courtès
f9704f179a
Add (guix memoization). 
* guix/combinators.scm (memoize): Remove.
* guix/memoization.scm: New file.
* Makefile.am (MODULES): Add it.
* gnu/packages.scm, gnu/packages/bootstrap.scm,
guix/build-system/gnu.scm, guix/build-system/python.scm,
guix/derivations.scm, guix/gnu-maintenance.scm,
guix/import/cran.scm, guix/import/elpa.scm,
guix/modules.scm, guix/scripts/build.scm,
guix/scripts/graph.scm, guix/scripts/lint.scm,
guix/store.scm, guix/utils.scm: Adjust imports accordingly.
 2017-01-28 18:55:20 +01:00
Ludovic Courtès
21f4a7c116
import: github: Better tolerate unexpected file extensions. 
* guix/import/github.scm (find-extension): Add ".tbz".
(updated-github-url): When 'find-extension' returns #f, use "" for EXT.
 2017-01-28 00:38:20 +01:00
Carlo Zancanaro
2f977d92d3
import: pypi: Don't add setuptools to propagated-inputs. 
* guix/import/pypi.scm (compute-inputs): Don't add setuptools to the imported
  package's propagated-inputs.
 2017-01-26 13:44:31 +01:00
Mathieu OTHACEHE
d18b79fed8
import: github: Catch HTTP 403 error during fetch. 
* guix/import/github.scm (json-fetch*): Catch 403 HTTP error that may be
  raised if a github token has not been set.

Signed-off-by: Mathieu OTHACEHE <m.othacehe@gmail.com>
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-01-19 17:17:16 +01:00
Ludovic Courtès
608a50b66c
http-client: Provide 'User-Agent' header by default. 
* guix/http-client.scm (http-fetch): Add #:headers parameter and honor
it.  Rename 'auth-header' to 'headers'.
* guix/import/github.scm (json-fetch*): Add comment about required
User-Agent.
 2017-01-13 18:24:19 +01:00
Ludovic Courtès
4cd5ec801b
import: github: Fix regression on the /releases retrieval. 
Fixes a regression introduced in
62bd24db39, which introduced a call to
'hash-table->alist'.

* guix/import/github.scm (json-fetch*): New procedure.
(latest-released-version): Use it.
 2017-01-13 18:24:19 +01:00
David Craven
f1d136957d
build-system: cargo: Handle Cargo.lock file not present. 
* guix/build-system/cargo.scm (cargo-build): Add src output.
  (private-keywords): Add #:outputs.
* guix/build/cargo-build-system.scm (configure): Use /share/rust-source
  when replacing inputs.
  (build, check): Don't do anything when there isn't a Cargo.lock file
  present.
  (install): Install sources to src output. When a Cargo.lock file is
  present use cargo install to install binaries to out.
* guix/import/crate.scm (make-crate-sexp): Importer uses the src output
  for crate inputs by default.
* guix/import/utils.scm (package-names->package-inputs, maybe-inputs,
  maybe-native-inputs): Take an optional output argument.
* tests/crate.scm (crate->guix-package test): Update.

Problem reported by Francisco Gómez García <espectalll@kydara.com>.
 2017-01-01 18:20:52 +01:00
David Craven
f53a5514e0
import: crate: Provide a default home-page value. 
* guix/import/crate.scm (make-crate-sexp): Provide a default home-page
  value.
* tests/crate.scm (test-crate): Add repository field.

Problem reported by ng0 <ng0@libertad.pw>.
 2017-01-01 18:12:06 +01:00
Carlo Zancanaro
681a555b83
import: elpa: Import dependencies as propagated-inputs 
* guix/import/elpa.scm (elpa-package->sexp): Import dependencies as
propagated-inputs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2016-12-29 18:22:49 +01:00
Carlo Zancanaro
36225d4fef
import: elpa: Fix call-with-downloaded-file 
* guix/import/elpa.scm (call-with-downloaded-file): Make function behaviour
match documentation string.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2016-12-29 18:22:49 +01:00
Ludovic Courtès
62bd24db39
import: github: Use 'json-fetch'. 
* guix/import/github.scm (json-fetch*): Remove.
(latest-released-version): Adjust accordingly.
 2016-12-20 19:14:41 +01:00
Marius Bakke
4cb7786eff
import: pypi: Match new 'pypi-uri' domain in updater. 
* guix/import/pypi.scm (pypi-package?): Match pypi.io domain.
 2016-12-20 12:57:26 +01:00
Ricardo Wurmus
fdbc84b056
import cran: Handle HTTP errors. 
Fixes <http://bugs.gnu.org/23479>.

* guix/import/cran.scm (fetch-description): Return #f in case of HTTP
errors.
 2016-12-17 19:13:42 +01:00
Ricardo Wurmus
94e907b962
import cran: Add recursive importer. 
* guix/import/cran.scm (recursive-import): New variable.
(cran->guix-package): Memoize the procedure.
 2016-12-17 19:12:55 +01:00
Ricardo Wurmus
b26abe4f14
import cran: Ignore default R packages. 
* guix/import/cran.scm (default-r-packages): New variable.
(description->package): Drop default R packages from list of inputs.
 2016-12-17 15:56:48 +01:00
Ricardo Wurmus
ad68f7fa58
import cran: description->package: Also return package dependencies. 
* guix/import/cran.scm (description->package): Return package
  dependencies in addition to generated package expression.
 2016-12-17 15:56:48 +01:00
Ricardo Wurmus
bfa0c752bc
import cran: Move guix-name to top-level. 
* guix/import/cran.scm (guix-name): Move to top-level.
 2016-12-17 15:56:48 +01:00
Ricardo Wurmus
2e5f32ce1b
import cran: Remove more invalid characters from package names. 
* guix/import/cran.scm (guix-name): Replace period and underscore with
  dash; always prepend package names with "r-".
 2016-12-17 15:56:47 +01:00
Ricardo Wurmus
576eda6d02
import cran: Handle BSD licenses with LICENSE file. 
* guix/import/cran.scm (string->license): Add cases for BSD licenses
with LICENSE file.
 2016-12-17 15:56:47 +01:00