Romain GARBAGE
916fb5347a
guix: download: Add support for git repositories.
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* guix/scripts/download.scm (git-download-to-store*): Add new variable.
(copy-recursively-without-dot-git): New variable.
(git-download-to-file): Add new variable.
(show-help): Add 'git', 'commit', 'branch' and 'recursive'options
help message.
(%default-options): Add default value for 'git-reference' and
'recursive' options.
(%options): Add 'git', 'commit', 'branch' and 'recursive' command
line options.
(guix-download) [hash]: Compute hash with 'file-hash*' instead of
'port-hash' from (gcrypt hash) module. This allows us to compute
hashes for directories.
* doc/guix.texi (Invoking guix-download): Add @item entries for
`git', `commit', `branch' and `recursive' options. Add a paragraph in
the introduction.
* tests/guix-download.sh: New tests. Move variables and trap definition
to the top of the file.
Change-Id: Ic2c428dca4cfcb0d4714ed361a4c46609339140a
Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
Reviewed-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2024-01-22 10:02:28 -05:00
muradm
1bdeec5d66
services: connman: Add 'connman-general-configuration'.
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Currently connman has no main.conf as specified in 'man 5 connman.conf' which
would allow setting NetworkInterfaceBalcklist and other useful options.
This patch adds connman-general-configuration, serializes it and
passes to connmad with --config= flag.
All configuration fields are 'maybe-*' deliberately, to not disturb current
users and not require supporting configuration changes for connmand.
* gnu/services/networking.scm (<connman-general-configuration>): New
configuration record to represent main.conf for connmand.
(<connman-configuration>)[general-configuration]: New field.
(connman-shepherd-service): Honor it.
*doc/guix.texi (Networking Services): Add generated configuration.
Change-Id: I5d78f49e8b2d5e0b3cbd7b8b604e8a254b6397e8
Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
Modified-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2024-01-22 09:51:32 -05:00
muradm
2b04ebaa74
gnu: cgit: Fix patch-absolute-file-names phase.
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* gnu/packages/version-control.scm (cgit) [arguments]: Fix regexp in patch-absolute-file-names phase.
Change-Id: I06c624ba23bfd0b8ca45045d1d2155c53258047e
Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
2024-01-22 08:54:47 -05:00
Ricardo Wurmus
bafc6efe48
gnu: r-flowstats: Update to 4.14.1.
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* gnu/packages/bioconductor.scm (r-flowstats): Update to 4.14.1.
Change-Id: I0a5d93cb08d169759b3f3817ab9b68b76fd5883f
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
1849ed7487
gnu: r-flowworkspace: Update to 4.14.2.
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* gnu/packages/bioconductor.scm (r-flowworkspace): Update to 4.14.2.
Change-Id: I7d47b89fedf207b930fc8bef6aedcbce4628a2d9
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
522a646714
gnu: r-gosemsim: Update to 2.28.1.
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* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.28.1.
[propagated-inputs]: Add r-yulab-utils.
Change-Id: Idf93e061ef43c2900a96fa9cafeaff95d13fa3be
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
500fc9e891
gnu: r-rhtslib: Update to 2.4.1.
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* gnu/packages/bioconductor.scm (r-rhtslib): Update to 2.4.1.
Change-Id: If0da0bbfbbfcb2f41b354ba1772967f9fee778ca
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
c61e835022
gnu: r-edger: Update to 4.0.11.
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* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.11.
Change-Id: I27638e6082286fa6e7876ce29ecf272d88402946
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
2d331f9ba0
gnu: r-tximportdata: Update to 1.30.0.
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* gnu/packages/bioconductor.scm (r-tximportdata): Update to 1.30.0.
Change-Id: Id02981fc94304cade5dbdc4c13a78d7155e62408
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
2c5ea54d89
gnu: r-tcgabiolinksgui-data: Update to 1.22.0.
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* gnu/packages/bioconductor.scm (r-tcgabiolinksgui-data): Update to 1.22.0.
Change-Id: Icb4d98fb51bea7d14500b84928c3cd8876161d7c
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
ab9f9b582e
gnu: r-sesamedata: Update to 1.20.0.
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* gnu/packages/bioconductor.scm (r-sesamedata): Update to 1.20.0.
Change-Id: Idc8ff7679495ede0dd037ef393300c7fe4787610
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
196e1f9025
gnu: r-parathyroidse: Update to 1.40.0.
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* gnu/packages/bioconductor.scm (r-parathyroidse): Update to 1.40.0.
Change-Id: I2a012832f1d0ea4468497ed82c528af10d660391
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
71c4d03835
gnu: r-curatedtcgadata: Update to 1.24.0.
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* gnu/packages/bioconductor.scm (r-curatedtcgadata): Update to 1.24.0.
Change-Id: If094ca958ff73b6aecd39c3d91042e9e75eb2075
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
ffd1da975f
gnu: r-gagedata: Update to 2.40.0.
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* gnu/packages/bioconductor.scm (r-gagedata): Update to 2.40.0.
Change-Id: Ifdbcee3c7c6c354530d62cc79f05cf30be432f3a
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
e9a99d768b
gnu: r-affydata: Update to 1.50.0.
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* gnu/packages/bioconductor.scm (r-affydata): Update to 1.50.0.
Change-Id: I653e146ff884bd72771ed779c4d9d65b03a7fdd9
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
aef69bfc03
gnu: r-all: Update to 1.44.0.
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* gnu/packages/bioconductor.scm (r-all): Update to 1.44.0.
Change-Id: I9f2817b571d2c42d57927370b51319e52388a3b5
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
1d0674befe
gnu: r-hsmmsinglecell: Update to 1.22.0.
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* gnu/packages/bioconductor.scm (r-hsmmsinglecell): Update to 1.22.0.
Change-Id: I541a4637f7ec9b6e85e52c8f222002adef230a50
2024-01-22 13:54:46 +01:00
Ricardo Wurmus
54efc5bd86
gnu: r-pasilla: Update to 1.30.0.
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* gnu/packages/bioconductor.scm (r-pasilla): Update to 1.30.0.
Change-Id: I3d309814bc0237181540e1c84ad8feca34f2fcef
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
1deaa74a6f
gnu: r-msigdb: Update to 1.10.0.
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* gnu/packages/bioconductor.scm (r-msigdb): Update to 1.10.0.
Change-Id: I32ad805ff92e7084eb682c239037978f183c323e
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
88beafd5dc
gnu: r-msdata: Update to 0.42.0.
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* gnu/packages/bioconductor.scm (r-msdata): Update to 0.42.0.
Change-Id: I94953464f1c9ef0e361c68a69fdbc9b11f46c4f8
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
13c2e3c9e4
gnu: r-minfidata: Update to 0.48.0.
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* gnu/packages/bioconductor.scm (r-minfidata): Update to 0.48.0.
Change-Id: I8485d570629d23b294a9ea4143a88ed91ae737af
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
cbb019eef6
gnu: r-mousegastrulationdata: Update to 1.16.0.
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* gnu/packages/bioconductor.scm (r-mousegastrulationdata): Update to 1.16.0.
Change-Id: I18a4fe4dbbcf3cc7f19084170fc8280fd4d5e7cf
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
55b3f66131
gnu: r-macrophage: Update to 1.18.0.
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* gnu/packages/bioconductor.scm (r-macrophage): Update to 1.18.0.
Change-Id: I51228161aac4cb10470aa2262fdc507a4cb903ec
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
0af8e69b32
gnu: r-italicsdata: Update to 2.40.0.
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* gnu/packages/bioconductor.scm (r-italicsdata): Update to 2.40.0.
Change-Id: I55a0100167f98571a562c0ca5fddbe41afeaf3d7
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
f4f7b82c5e
gnu: r-illumina450probevariants-db: Update to 1.38.0.
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* gnu/packages/bioconductor.scm (r-illumina450probevariants-db): Update to 1.38.0.
Change-Id: Ic5af6f5e7ba653edc5ed785f2b3e9d522e7586af
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
da790d92e5
gnu: r-hdcytodata: Update to 1.22.0.
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* gnu/packages/bioconductor.scm (r-hdcytodata): Update to 1.22.0.
Change-Id: I06afd0ffdd8c1b77ce03e9aabe59f150c28e6141
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
c916f39b5c
gnu: r-genomationdata: Update to 1.34.0.
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* gnu/packages/bioconductor.scm (r-genomationdata): Update to 1.34.0.
Change-Id: Ia8e4535efcdcbb0e706b1e9682594467ab8c2fda
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
8369898fb0
gnu: r-genelendatabase: Update to 1.38.0.
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* gnu/packages/bioconductor.scm (r-genelendatabase): Update to 1.38.0.
Change-Id: Idf120599c34af21cd3c5c854d434c93c702f0cd4
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
95c3baf59f
gnu: r-flowsorted-blood-epic: Update to 2.6.0.
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* gnu/packages/bioconductor.scm (r-flowsorted-blood-epic): Update to 2.6.0.
Change-Id: I458aa7c0ac482d1e60d6afb66b236ea6886d7ce6
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
43e6cc3189
gnu: r-flowsorted-blood-450k: Update to 1.40.0.
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* gnu/packages/bioconductor.scm (r-flowsorted-blood-450k): Update to 1.40.0.
Change-Id: Ia2d2ae18c80d3a4a7858026a424da1537d657782
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
4c4f07ca26
gnu: r-copyhelper: Update to 1.34.0.
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* gnu/packages/bioconductor.scm (r-copyhelper): Update to 1.34.0.
Change-Id: I2cfa340e85fb723615295949ef614db1761f9c6e
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
f0591739ce
gnu: r-chromstardata: Update to 1.28.0.
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* gnu/packages/bioconductor.scm (r-chromstardata): Update to 1.28.0.
Change-Id: I5146185d21a589b93152fe67df4e4a100a0b0a33
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
225f49fb30
gnu: r-champdata: Update to 2.34.0.
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* gnu/packages/bioconductor.scm (r-champdata): Update to 2.34.0.
Change-Id: I658aab6c78df1fcbd7fb4d34df144635a2a10347
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
7b5db44490
gnu: r-celldex: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-celldex): Update to 1.12.0.
Change-Id: I565b21aafa46cb710a8acc3ab16b7905614e6838
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
1aac5e7bc8
gnu: r-breakpointrdata: Update to 1.20.0.
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* gnu/packages/bioconductor.scm (r-breakpointrdata): Update to 1.20.0.
Change-Id: I1fe98a2e5fd8bf4b3106c7315dda8dee906c5152
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
6c1bb9047e
gnu: r-biscuiteerdata: Update to 1.16.0.
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* gnu/packages/bioconductor.scm (r-biscuiteerdata): Update to 1.16.0.
[propagated-inputs]: Add r-genomicranges.
Change-Id: I5459630b266f04bbac50562cb134e9ca28bbc2d7
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
cd5a4ac6df
gnu: r-bladderbatch: Update to 1.40.0.
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* gnu/packages/bioconductor.scm (r-bladderbatch): Update to 1.40.0.
Change-Id: I2d5ec797815dd0101da8692b1fa320020c33ab85
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
09ee801fe9
gnu: r-bcellviper: Update to 1.38.0.
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* gnu/packages/bioconductor.scm (r-bcellviper): Update to 1.38.0.
Change-Id: Iaac28d6376364c0d0e30c29deb6df22c40b18b29
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
ee966f03d5
gnu: r-arrmdata: Update to 1.38.0.
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* gnu/packages/bioconductor.scm (r-arrmdata): Update to 1.38.0.
Change-Id: Id1c900cd1a058057d18129c7f2d373bc4772d5cd
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
9512db59ab
gnu: r-aneufinderdata: Update to 1.30.0.
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* gnu/packages/bioconductor.scm (r-aneufinderdata): Update to 1.30.0.
Change-Id: I94049747ac40bfe1926bfe6a34727c35e1fb6578
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
8f70c2352d
gnu: r-adductdata: Update to 1.18.0.
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* gnu/packages/bioconductor.scm (r-adductdata): Update to 1.18.0.
Change-Id: I268b9dde5e1913d17e195a77005e3c28b41f6aca
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
b6fb97a250
gnu: r-pfam-db: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-pfam-db): Update to 3.18.0.
Change-Id: Iee6ad8fe9188cb6eb5df5f163e5af228a783b682
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
f16f8105e8
gnu: r-txdb-hsapiens-ucsc-hg38-knowngene: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg38-knowngene): Update to 3.18.0.
Change-Id: Ic11773dbb44ba5c90ea69142c03bbe7292ca03a6
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
5265421826
gnu: r-bsgenome-hsapiens-ucsc-hg38: Update to 1.4.5.
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* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-ucsc-hg38): Update to 1.4.5.
[propagated-inputs]: Add r-genomeinfodb.
Change-Id: I77c7e216286314619c05272a0baffb68dcd5a3e6
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
505aac07c4
gnu: r-org-mm-eg-db: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-org-mm-eg-db): Update to 3.18.0.
Change-Id: Idee9907070a23dd79bf77e2d4a7e8ac17419826a
2024-01-22 13:54:45 +01:00
Ricardo Wurmus
f13e407689
gnu: r-org-dr-eg-db: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-org-dr-eg-db): Update to 3.18.0.
Change-Id: Icb7f74c83ff7189c7b02964fcb25bac6610fd790
2024-01-22 13:54:44 +01:00
Ricardo Wurmus
8445ad15ec
gnu: r-org-dm-eg-db: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-org-dm-eg-db): Update to 3.18.0.
Change-Id: Ic50a64af9d5b76a4c7cb8864e8e723c533218e19
2024-01-22 13:54:44 +01:00
Ricardo Wurmus
0adeabcf53
gnu: r-org-ce-eg-db: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-org-ce-eg-db): Update to 3.18.0.
Change-Id: Id83d4e64b80ce01abdb2fe06735e0af6b7ebac10
2024-01-22 13:54:44 +01:00
Ricardo Wurmus
297fc0d76c
gnu: r-illuminahumanmethylation450kanno-ilmn12-hg19: Update to 0.6.1.
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* gnu/packages/bioconductor.scm (r-illuminahumanmethylation450kanno-ilmn12-hg19): Update to 0.6.1.
Change-Id: I142318c4854c75f27bcd1bfe4bfc389cbc8b3725
2024-01-22 13:54:44 +01:00
Ricardo Wurmus
c5a934df85
gnu: r-go-db: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-go-db): Update to 3.18.0.
Change-Id: I90ff2421b742369847353aaf32cf8bc4651afda7
2024-01-22 13:54:44 +01:00
