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Author SHA1 Message Date
Maxim Cournoyer
a35f3a4233
gnu: cqfd: Update to 5.2.1. 
* gnu/packages/docker.scm (cqfd): Update to 5.2.1.
 2020-11-14 11:41:07 -05:00
Maxim Cournoyer
7c816ed493
gnu: python-numba: Update to 0.51.2. 
Fixes <https://issues.guix.gnu.org/43546>.

* gnu/packages/python-xyz.scm (python-numba): Update to 0.51.2.
[arguments]: Remove #:modules.
[phases]{check}: Use add-installed-pythonpath instead of some ad-hoc
solution.  Set HOME.
{remove-failing-tests}: Remove.
[inputs]: Move to...
[native-inputs]: ...here.
 2020-11-14 11:41:07 -05:00
Maxim Cournoyer
8a34f29292
gnu: python-llvmlite: Update to 0.34.0. 
This is in preparation of updating the broken python-numba package.

* gnu/packages/llvm.scm (python-llvmlite): Update to 0.34.0.
[arguments]: Enable tests.
[phases]{patch-reference-to-llvmlite, skip-failing-tests}
{set-compiler/linker-flags}: New phases.
[inputs]: Update custom LLVM input and associated patches.
[home-page]: Use HTTPS.
 2020-11-14 11:41:07 -05:00
Maxim Cournoyer
9e4c24ef90
gnu: llvm-9: Standardize patch level. 
Having a non-standard (different than 1) patch level requirement means the
patches cannot be composed easily from different origins.  The following
command was used to remove one level from the llvm-9 patches:

  sed -e 's|^--- a/|--- |' -e 's|^+++ b/|+++ |' \
      gnu/packages/patches/llvm-9* -i

* gnu/packages/llvm.scm (llvm-9)[source]: Drop the patch-flags field.
Re-indent list of patches.
* gnu/packages/patches/llvm-9-fix-bitcast-miscompilation.patch: Strip one level.
* gnu/packages/patches/llvm-9-fix-lpad-miscompilation.patch: Likewise.
* gnu/packages/patches/llvm-9-fix-scev-miscompilation.patch: Likewise.
 2020-11-14 11:41:07 -05:00
nixo
199ebb1298
gnu: Add kristall. 
* gnu/packages/web-browsers.scm (kristall): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2020-11-14 16:19:36 +00:00
Alexandru-Sergiu Marton
870d74ab68
gnu: gmnisrv: Update to 0-1.d484ba0. 
* gnu/packages/web.scm (gmnisrv): Update to 0-1.d484ba0.
[arguments]: Remove the install-config phase.
[propagated-inputs]: Add mailcap.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2020-11-14 11:32:41 +00:00
Alexandru-Sergiu Marton
149dd51d2f
services: gmnisrv: Export procedures and service type. 
* gnu/services/web.scm: Export gmnisrv-configuration, gmnisrv-configuration?,
gmnisrv-configuration-package, gmnisrv-configuration-config-file,
gmnisrv-service-type.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2020-11-14 11:32:40 +00:00
Alexandru-Sergiu Marton
85ad155158
gnu: Add mailcap. 
* gnu/packages/mail.scm (mailcap): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2020-11-14 11:32:37 +00:00
Pierre Neidhardt
403ba4140f
gnu: emacs-evil-collection: Update to 20201113. 
* gnu/packages/emacs-xyz.scm (emacs-evil-collection): Update to 20201113.
 2020-11-14 12:22:53 +01:00
Holger Peters
289b20ef62
doc: Document hg-fetch. 
* doc/guix.texi (origin Reference): Add documentation for hg-fetch.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2020-11-14 10:27:00 +00:00
Holger Peters
521d33cdc6
guix: hg-download: Add hg-predicate. 
`hg-predicate' acts for mercurial repositories as `git-predicate' acts
for git-repositories.

* guix/hg-download.scm (hg-predicate): New procedure.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2020-11-14 10:27:00 +00:00
Pierre Neidhardt
2980b726d3
gnu: emacs-helm-system-packages: Update to 1.10.2. 
* gnu/packages/emacs-xyz.scm (emacs-helm-system-packages): Update to 1.10.2.
 2020-11-14 11:26:04 +01:00
Christopher Baines
e365f8b26c
doc: Fix Guix Build Coordinator agent configuration defaults. 
* doc/guix.texi (Guix Build Coordinator): Fix some
guix-build-coordinator-agent-configuration defaults.
 2020-11-14 09:51:17 +00:00
宋文武
7f9888e53f
gnu: Add sx. 
* gnu/packages/xdisorg.scm (sx): New variable.
 2020-11-14 10:23:07 +08:00
Tobias Geerinckx-Rice
0404b28dc7
gnu: python-pykeepass: Update to 3.2.1. 
* gnu/packages/python-crypto.scm (python-pykeepass): Update to 3.2.1.
[propagated-inputs]: Substitute python-pycryptodomex for
python-pycryptodome.
 2020-11-14 01:50:35 +01:00
Tobias Geerinckx-Rice
c8ca9eb8f3
gnu: python-pycryptodome: Note public-domain legacy. 
* gnu/packages/python-pycryptodome.scm (python-pycryptodome)[license]:
Add public-domain.
 2020-11-14 01:50:34 +01:00
Tobias Geerinckx-Rice
970a3026e9
gnu: python-pycryptodome: Expand description. 
* gnu/packages/python-crypto.scm (python-pycryptodome)[synopsis, description]:
Copy higher-level description from python-pycryptodomex.
 2020-11-14 01:50:33 +01:00
Tobias Geerinckx-Rice
5ef1913ce6
gnu: Add python-pycryptodomex. 
* gnu/packages/python-crypto.scm (python-pycryptodomex): New public
variable.
 2020-11-14 01:50:32 +01:00
Tobias Geerinckx-Rice
e0c34c1a4c
gnu: lua-resty-lrucache: Update to 0.10. 
* gnu/packages/lua.scm (lua-resty-lrucache): Update to 0.10.
 2020-11-14 01:50:31 +01:00
Tobias Geerinckx-Rice
9c3a29e382
gnu: lua-resty-core: Update to 0.1.18. 
* gnu/packages/lua.scm (lua-resty-core): Update to 0.1.18.
 2020-11-14 01:50:30 +01:00
Tobias Geerinckx-Rice
c41314853d
gnu: nginx-lua-module: Update to 0.10.16. 
* gnu/packages/web.scm (nginx-lua-module): Update to 0.10.16.
 2020-11-14 01:50:30 +01:00
Tobias Geerinckx-Rice
b5454eb33d
gnu: libgda: Update to 5.2.10. 
* gnu/packages/gnome.scm (libgda): Update to 5.2.10.
[source]: Generate git tag from version number.
[native-inputs]: Add autoconf-archive.
 2020-11-14 01:50:29 +01:00
Tobias Geerinckx-Rice
7214dc8449
gnu: python-duniterpy: Update to 0.60.1. 
* gnu/packages/finance.scm (python-duniterpy): Update to 0.60.1.
 2020-11-14 01:50:28 +01:00
Tobias Geerinckx-Rice
647d1ece49
gnu: inxi-minimal: Update to 3.1.09-1. 
* gnu/packages/admin.scm (inxi-minimal): Update to 3.1.09-1.
 2020-11-14 01:50:27 +01:00
Ludovic Courtès
c6e8f40f2c
maint: Rebuild '.version' when 'config.status' changes. 
* Makefile.am ($(top_srcdir)/.version): Depend on 'config.status'.  Use
$(AM_V_GEN).
 2020-11-13 22:48:34 +01:00
Ricardo Wurmus
4e9b2e8ba2
gnu: inspekt3d: Build with Guile 3. 
* gnu/packages/engineering.scm (inspekt3d)
[source]: Add snippet to allow building with Guile 3.0.
[inputs]: Replace guile-2.2 with guile-3.0.
[propagated-inputs]: Replace guile-opengl with guile3.0-opengl.
 2020-11-13 21:42:45 +01:00
Ricardo Wurmus
dd012afde4
gnu: libfive: Update to 0-4.8ca1b86. 
* gnu/packages/engineering.scm (libfive): Update to 0-4.8ca1b86.
[inputs]: Replace guile-2.2 with guile-3.0.
 2020-11-13 21:42:45 +01:00
Ludovic Courtès
627e61f1a8
maint: Add '.guix-authorizations' to the distribution. 
Reported by Vagrant Cascadian.

* Makefile.am (EXTRA_DIST): Add .guix-authorizations.
 2020-11-13 21:31:22 +01:00
Tobias Geerinckx-Rice
f6e031ab36
gnu: julia: Update to 1.5.3. 
* gnu/packages/julia.scm (julia): Update to 1.5.3.
(libuv-julia): Update to 1fcc6d66f9df74189c74d3d390f02202bb7db953.
(julia-patch): Update version.  No change to patches.
 2020-11-13 19:43:25 +01:00
Tobias Geerinckx-Rice
db2f95f1c2
gnu: libwhich: Compile natively, too. 
This follows up on commit 12424b3ecf.

* gnu/packages/julia.scm (libwhich)[arguments]: Fix non-cross
compilation.
 2020-11-13 19:43:25 +01:00
John Soo
0cdc13ce43
guix build: Expose log-url for third parties. 
* guix/scripts/build.scm (log-url): Expose it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-11-13 18:11:30 +01:00
John Soo
e783cd51ba
pack: Expose some bindings for third-party use. 
* guix/scripts/pack.scm (compressor-name, compressor-extension,
compressor-command, %compressors, %formats): Export.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-11-13 18:10:11 +01:00
Ludovic Courtès
0b146ceaab
Merge branch 'version-1.2.0' of ssh://git.sv.gnu.org/srv/git/guix into version-1.2.0 2020-11-13 17:02:49 +01:00
Maxim Cournoyer
4e01bc440a
gnu: python-pysam: Update to version 0.16.0.1. 
The check phase was failing with:

starting phase `check'
make: Entering directory '...drv-0/python-pysam-0.15.1-checkout/tests/pysam_data'
samtools faidx ex1.fa
samtools import ex1.fa.fai ex1.sam.gz ex1.bam
[main] "samtools import" has been removed. Please use "samtools view" instead.
make: *** [Makefile:56: ex1.bam] Error 1

* gnu/packages/bioinformatics.scm (python-pysam): Update to version 0.16.0.1.
[phases]{check}: Delete a couple more failing test files.
[native-inputs]: Add python-pytest.
 2020-11-13 10:17:00 -05:00
Roel Janssen
37ba374a53
gnu: Fix build for python-pysam. 
* gnu/packages/bioinformatics.scm (python-pysam): Use htslib-1.9,
  samtools-1.9, and bcftools-1.9.
 2020-11-13 16:16:43 +01:00
Roel Janssen
ecc309c142
gnu: Add bcftools-1.9. 
* gnu/packages/bioinformatics.scm (bcftools-1.9): New variable.
 2020-11-13 16:14:01 +01:00
Ekaitz Zarraga
3a15847685
gnu: dino: Update to 0.2.0 
Update of the recently released Dino 0.2.0 version.

Thanks!

From 0b764d48996f3851ee2596a25f1fd42a8d3f4063 Mon Sep 17 00:00:00 2001
From: Ekaitz Zarraga <ekaitz@elenq.tech>
Date: Fri, 13 Nov 2020 12:18:11 +0100
Subject: [PATCH] gnu: dino: Update to 0.2.0

    * gnu/packages/messaging.scm (dino): Update to 0.2.0

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2020-11-13 15:02:33 +01:00
Tobias Geerinckx-Rice
12424b3ecf
gnu: libwhich: Cross-compile. 
* gnu/packages/julia.scm (libwhich)[arguments]: Use CC-FOR-TARGET.
Look for zlib in NATIVE-INPUTS.
 2020-11-13 15:02:32 +01:00
Ludovic Courtès
4b2ce77ca0
gnu: guix: Update to 3ba6ffd. 2020-11-13 15:01:25 +01:00
Roel Janssen
c3232fcc77
gnu: bedtools: Use samtools-1.9. 
The build for bedtools with samtools 1.11 triggers a testsuite
failure which is reported here:
https://github.com/arq5x/bedtools2/issues/814

* gnu/packages/bioinformatics.scm (bedtools): Use samtools-1.9.
 2020-11-13 14:49:31 +01:00
Roel Janssen
da4a38edad
gnu: Add samtools-1.9. 
* gnu/packages/bioinformatics.scm (samtools-1.9): New variable.
 2020-11-13 14:49:27 +01:00
Roel Janssen
3ede804f6d
gnu: Add htslib-1.9. 
* gnu/packages/bioinformatics.scm (htslib-1.9): New variable.
 2020-11-13 14:49:20 +01:00
Ludovic Courtès
3ba6ffd0dd
gnu: guix: Update to 1.2.0rc1. 2020-11-13 14:40:28 +01:00
Ludovic Courtès
1e272d42f6
Update NEWS. 2020-11-13 09:13:56 +01:00
Ludovic Courtès
ae10ec441a
gnu: glib: Graft patch to detect changes to the installed applications. 
Fixes <https://bugs.gnu.org/35594>.
Reported by sirgazil <sirgazil@zoho.com> and others.

* gnu/packages/patches/glib-appinfo-watch.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/glib.scm (glib)[replacement]: New field.
(glib-with-gio-patch): New variable.
(glib-with-documentation): Use 'package/inherit'.
 2020-11-13 09:13:56 +01:00
Ludovic Courtès
a30e7a72fc
maint: Use 'guix' instead of 'guile3.0-guix' for the binary tarball. 
* Makefile.am (GUIX_FOR_BINARY_TARBALL): Change to 'guix'.
 2020-11-13 09:13:56 +01:00
Tobias Geerinckx-Rice
2646b9d6d3
gnu: vim: Update to 8.2.1980. 
* gnu/packages/vim.scm (vim): Update to 8.2.1980.
 2020-11-13 01:52:16 +01:00
Tobias Geerinckx-Rice
bb2232206c
gnu: criu: Support nftables. 
* gnu/packages/virtualization.scm (criu)[inputs]: Add nftables.
 2020-11-13 01:43:57 +01:00
Tobias Geerinckx-Rice
0a46a1e918
gnu: criu: Update to 3.15. 
* gnu/packages/virtualization.scm (criu): Update to 3.15.
 2020-11-13 01:43:56 +01:00
Tobias Geerinckx-Rice
c645d44f01
gnu: youtube-dl: Update to 2020.11.12. 
* gnu/packages/video.scm (youtube-dl): Update to 2020.11.12.
 2020-11-13 01:43:56 +01:00