ryan77627/guix
1
0
Fork 0
mirror of https://git.in.rschanz.org/ryan77627/guix.git synced 2024-11-19 05:07:11 -05:00
Code Issues Projects Releases Packages Wiki Activity Actions
89087 commits 1 branch 0 tags 448 MiB
Commit graph

89087 commits

This branch
This branch
All branches
Author SHA1 Message Date
zimoun
28d530ea44
gnu: julia-interpolations: Disable tests in i686-linux. 
* gnu/packages/julia-xyz.scm (julia-interpolations)[arguments]<#:tests?>:
Conditionally disable tests.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:31 +02:00
zimoun
e3c15b0bfc
gnu: julia-arrayinterface: Disable tests for i686. 
* gnu/packages/julia-xyz.scm (julia-arrayinterface)[arguments]<#:tests?>:
Conditionally disable tests.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:31 +02:00
zimoun
7c8e9cbfa9
gnu: julia-mappedarrays: Fix tests on i686-linux. 
* gnu/packages/julia-xyz.scm (julia-mappedarrays)[arguments]<#:phases>:
Conditionally replace the incorrect type in test suite.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:30 +02:00
zimoun
dcd7c950c6
gnu: julia-blockarrays: Fix tests on i686-linux. 
* gnu/packages/julia-xyz.scm (julia-blockarrays)[arguments]<#:phases>:
Conditionally replace the incorrect type in test suite.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:30 +02:00
zimoun
557caa4e2c
gnu: julia-lazyarrays: Fix tests on i686-linux. 
* gnu/packages/julia-xyz.scm (julia-lazyarrays)[arguments]<#:phases>:
Conditionally replace the incorrect type in test suite.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:30 +02:00
zimoun
dbad333481
gnu: julia-configurations: Fix tests on i686-linux. 
* gnu/packages/julia-xyz.scm (julia-configurations)[arguments]<#:phases>:
Conditionally replace the incorrect type in test suite.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:30 +02:00
zimoun
a31a4517b6
gnu: julia-finitedifferences: Fix tests on i686-linux. 
* gnu/packages/julia-xyz (julia-finitedifferences)[arguments]<#:phases>:
Conditionnally disable the failing test.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:29 +02:00
zimoun
2a749f34e5
gnu: julia-benchmarktools: Fix tests on i686-linux. 
* gnu/packages/julia-xyz.scm (julia-benchmarktools)[arguments]<#:phases>:
Conditionnally disable the failing tests.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:29 +02:00
zimoun
7fee8a46fb
gnu: julia-datastructures: Fix tests on i686-linux. 
* gnu/packages/julia-xyz.scm (julia-datastructures)[arguments]<#:phases>:
Conditionnally disable the failing test.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:50:29 +02:00
zimoun
9112bed608
gnu: libunwind-julia: Fix build on i686-linux. 
* gnu/packages/julia.scm (libunwind)[origin]<patches>: Add patch.
* gnu/packages/patches/libunwind-julia-fix-GCC10-fno-common.patch: New file.
* gnu/local/mk (dist_patch_DATA): Register it.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-12-04 19:33:30 +02:00
Nicolas Goaziou
f199427c1b
gnu: emacs-org-roam-bibtex: Update to 0.6.1. 
* gnu/packages/emacs-xyz.scm (emacs-org-roam-bibtex): Update to 0.6.1.
 2021-12-04 16:17:58 +01:00
Ricardo Wurmus
cc491eab7e
gnu: plink-ng: Enable tests. 
* gnu/packages/bioinformatics.scm (plink-ng)[arguments]: Replace 'check phase
to run tests; do not disable tests via arguments.
[native-inputs]: Add diffutils, plink, and python.
 2021-12-04 16:00:08 +01:00
Ricardo Wurmus
e28b8a9cea
gnu: plink-ng: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (plink-ng)[arguments]: Remove reference to
%outputs by using a gexp.
 2021-12-04 15:35:28 +01:00
Ricardo Wurmus
88bb81b515
gnu: plink: Remove reference to %build-inputs. 
* gnu/packages/bioinformatics.scm (plink)[arguments]: Use a gexp to replace
reference to %build-inputs.
 2021-12-04 15:31:31 +01:00
Ricardo Wurmus
e920101141
gnu: plink: Remove trailing #T. 
* gnu/packages/bioinformatics.scm (plink)[arguments]: Remove trailing #T from
build phase.
 2021-12-04 15:31:08 +01:00
Ricardo Wurmus
a4e7475edc
gnu: rsem: Update to 1.3.3. 
* gnu/packages/bioinformatics.scm (rsem): Update to 1.3.3.
[arguments]: Build with gnu++11 standard; patch sources for compatibility.
 2021-12-04 15:27:39 +01:00
Ricardo Wurmus
c45c909026
gnu: rsem: Remove trailing #T. 
* gnu/packages/bioinformatics.scm (rsem)[arguments]: Remove trailing #T from
build phases.
 2021-12-04 15:26:48 +01:00
Ricardo Wurmus
5e0bcba57b
gnu: rsem: Remove references to %build-inputs. 
* gnu/packages/bioinformatics.scm (rsem)[arguments]: Use a gexp.
 2021-12-04 15:26:01 +01:00
Ricardo Wurmus
23975fe27a
gnu: rsem: Remove trailing #T from snippet. 
* gnu/packages/bioinformatics.scm (rsem)[source]: Remove trailing #T.
 2021-12-04 15:25:26 +01:00
Ricardo Wurmus
cfaf37d10b
gnu: prodigal: Remove reference to %outputs. 
* gnu/packages/bioinformatics.scm (prodigal)[arguments]: Remove reference to
%outputs by using a gexp.
 2021-12-04 15:13:11 +01:00
Ricardo Wurmus
09ae51f7b8
gnu: prank: Bind INPUTS in 'install phase. 
* gnu/packages/bioinformatics.scm (prank)[arguments]: Bind INPUTS in 'install
phase to remove references to %build-inputs.
 2021-12-04 15:11:28 +01:00
Ricardo Wurmus
e128839a94
gnu: prank: Remove trailing #T. 
* gnu/packages/bioinformatics.scm (prank)[arguments]: Remove trailing #T from
build phases.
 2021-12-04 15:11:04 +01:00
Jonathan Brielmaier
1e5656e7bd
news: Add copyright line for myself. 
* etc/news.scm: Add myself to the copyright headers.
 2021-12-04 15:10:29 +01:00
jgart
da70132ee9
gnu: janet: Update to 1.19.0. 
* gnu/packages/lisp.scm (janet): Update to 1.19.0.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2021-12-04 13:51:49 +01:00
cage
612fe425b4
gnu: tinmop: Update to 0.9.2. 
* gnu/packages/web-browsers.scm (tinmop): Update to 0.9.2.
  [inputs]: Move nano, openssl and xdg-utils to...
  [native-inputs]: ... here. Add automake, autoconf and mandoc. Remove curl
  and gnupg.
  [arguments]: Add 'fix-configure.ac' phase.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>
 2021-12-04 13:44:17 +01:00
Ricardo Wurmus
18a85213ae
gnu: pigx-sars-cov2-ww: Update to 0.0.4. 
* gnu/packages/bioinformatics.scm (pigx-sars-cov2-ww): Update to 0.0.4.
[inputs]: Add bbmap, bedtools, fastp, ivar, and r-r-utils.
 2021-12-04 12:42:51 +01:00
Ricardo Wurmus
114eb987cb
gnu: mash: Replace references to %build-inputs. 
* gnu/packages/bioinformatics.scm (mash)[arguments]: Use a gexp.
 2021-12-04 00:32:01 +01:00
Ricardo Wurmus
22d9097b5e
gnu: mash: Move htslib and capnproto to regular inputs. 
* gnu/packages/bioinformatics.scm (mash)[native-inputs]: Move htslib and
capnproto from here...
[inputs]: ...to here.
 2021-12-04 00:31:20 +01:00
Ricardo Wurmus
a6b6084649
gnu: mash: Simplify snippet. 
* gnu/packages/bioinformatics.scm (mash)[snippet]: Simplify.
 2021-12-04 00:30:44 +01:00
Ricardo Wurmus
31409a4af7
gnu: mafft: Remove trailing #T. 
* gnu/packages/bioinformatics.scm (mafft)[arguments]: Remove trailing #T from
build phase.
 2021-12-04 00:22:27 +01:00
Ricardo Wurmus
630671d2e8
gnu: mafft: Replace references to %build-inputs and %outputs. 
* gnu/packages/bioinformatics.scm (mafft)[arguments]: Replace references to
%outputs with a gexp; replace reference to %build-inputs in the 'wrap-programs
phase by binding INPUTS.
 2021-12-04 00:21:27 +01:00
Ricardo Wurmus
5cb2920b8d
gnu: jellyfish: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (jellyfish)[arguments]: Use a gexp.
 2021-12-04 00:19:08 +01:00
Ricardo Wurmus
7c2ee27360
gnu: fastp: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (fastp)[arguments]: Use a gexp.
 2021-12-04 00:16:10 +01:00
Ricardo Wurmus
64aafe4bc5
gnu: java-picard: Replace reference to %build-inputs. 
* gnu/packages/bioinformatics.scm (java-picard): Use a gexp.
 2021-12-04 00:06:43 +01:00
Ricardo Wurmus
a3b00a21c0
gnu: java-htsjdk: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (java-htsjdk)[arguments]: Use a gexp.
 2021-12-04 00:03:54 +01:00
Ricardo Wurmus
62e0641892
gnu: fxtract: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (fxtract)[arguments]: Use a gexp.
 2021-12-04 00:02:20 +01:00
Ricardo Wurmus
4f03151ca4
gnu: delly: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (delly)[arguments]: Replace reference to
%outputs with a gexp.
 2021-12-04 00:00:26 +01:00
Ricardo Wurmus
3601fcbf65
gnu: libbigwig: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (libbigwig)[arguments]: Replace reference to
%outputs with a gexp.
 2021-12-03 23:57:24 +01:00
Ricardo Wurmus
fd607a9efa
gnu: cd-hit: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (cd-hit)[arguments]: Replace reference to
%outputs with gexp.
 2021-12-03 23:56:11 +01:00
Ricardo Wurmus
c40852a227
gnu: bowtie1: Replace reference to %outputs. 
* gnu/packages/bioinformatics.scm (bowtie1)[arguments]: Remove reference to
%outputs by using a gexp.
 2021-12-03 23:54:10 +01:00
Ricardo Wurmus
a47a90b900
gnu: bowtie: Remove reference to %outputs. 
* gnu/packages/bioinformatics.scm (bowtie)[arguments]: Replace reference to
%outputs with a gexp.
 2021-12-03 23:52:43 +01:00
Ricardo Wurmus
f5c38ee45f
gnu: bless: Remove reference to %build-inputs. 
* gnu/packages/bioinformatics.scm (bless)[arguments]: Replace reference to
%build-inputs with a gexp.  Use the dynamic library of zlib while we're at it.
[inputs]: Remove zlib:static.
 2021-12-03 23:51:16 +01:00
Ricardo Wurmus
dd19c8da88
gnu: bless: Remove trailing #T from snippet and build phases. 
* gnu/packages/bioinformatics.scm (bless)[source, arguments]: Remove all
trailing #Ts.
 2021-12-03 23:48:46 +01:00
Ricardo Wurmus
0e09065460
gnu: bedtools: Remove reference to %outputs. 
* gnu/packages/bioinformatics.scm (bedtools)[arguments]: Use a gexp instead of
referencing %outputs.
 2021-12-03 23:36:18 +01:00
Ricardo Wurmus
a5663a7c8a
gnu: qtltools: Replace references to %build-inputs. 
* gnu/packages/bioinformatics.scm (qtltools)[arguments]: Use a gexp instead of
referencing %build-inputs.
 2021-12-03 23:26:48 +01:00
Ricardo Wurmus
ce9bfcddb5
gnu: imp: Update to 2.15.0. 
* gnu/packages/bioinformatics.scm (imp): Update to 2.15.0.
[arguments]: Disable one more test.
 2021-12-03 22:29:52 +01:00
Ricardo Wurmus
dcf857e486
gnu: Add r-fpeek. 
* gnu/packages/cran.scm (r-fpeek): New variable.
 2021-12-03 22:29:40 +01:00
Liliana Marie Prikler
15404ff19b
gnu: emacs: Load package descriptors from packages referenced by subdirs.el 
* gnu/packages/aux-files/emacs/guix-emacs.el
(guix-emacs--non-core-load-path): New procedure.
(guix-emacs-autoload-packages): Use it here.
(guix-emacs-load-package-descriptors): New procedure.
* gnu/packages/emacs.scm (emacs)[install-site-start]: Install advice to run
‘guix-emacs-load-package-descriptors’.
 2021-12-03 21:39:50 +01:00
Liliana Marie Prikler
98cec36957
build-system: emacs: Keep -pkg.el files. 
Partly fixes <https://bugs.gnu.org/48331> -- package descriptions can now be
found in the install directory.

* guix/build/emacs-build-system.scm (%default-exclude): Remove "-pkg\\.el$".
 2021-12-03 21:39:50 +01:00
Liliana Marie Prikler
4baeb72717
gnu: emacs: Make DocView PDF work out of the box. 
* gnu/packages/emacs.scm (emacs)[patch-program-file-names]: Add patches for
the programs “gs”, “dvipdf”, “ps2pdf” and “pdftotext”.
[inputs]: Add ghostscript and poppler.
 2021-12-03 21:39:49 +01:00