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Author SHA1 Message Date
Efraim Flashner 6aade039e1
guix: import: Report go version for go importer. 
* guix/import/go.scm (go-package, go.mod-go-version): New procedures.
(go-module->guix-package): Add the #:go keyword in the generated package
definition if the required go is newer than the default go.
* tests/go.scm (mock-http-get): Use gexps for package arguments.

Change-Id: I8d005740a442330ac307a40a53764c803ceffc4f
 2023-12-16 18:05:58 +02:00
Efraim Flashner e35dd13d8a
guix: import: Don't include indirect dependencies in go. 
* guix/import/go.scm (parse-go.mod)[define-peg-patern require]: Adjust
the peg pattern to reject lines with the 'indirect' comment in them.

Change-Id: I9618bbaa1cb8c6549ced875e3c8d32afc72c3b9b
 2023-12-16 18:05:58 +02:00
Efraim Flashner ed9d47c6ae
gnu: fpc: Add support for aarch64-linux. 
* gnu/packages/pascal.scm (fpc-bootstrap-aarch64): New variable.
(fpc)[arguments]: Add cases for aarch64-linux.
[native-inputs]: Add case for fpc-binary for aarch64-linux.

Change-Id: I03630f9b36c10636db23c00aaf8f72b9ddf2390d
 2023-12-16 18:05:58 +02:00
Efraim Flashner 617e3dd2ae
gnu: fpc: Add support for powerpc64le-linux. 
* gnu/packages/pascal.scm (fpc-bootstrap-powerpc64le): New variable.
(fpc)[arguments]: Add cases for powerpc64le-linux.
[native-inputs]: Add case for fpc-binary for powerpc64le-linux.

Change-Id: I4f12003b35ef60764e7e25cc14aed7d243c6fe0f
 2023-12-16 18:05:58 +02:00
Efraim Flashner 2b501ed730
gnu: fpc: Add support for powerpc-linux. 
* gnu/packages/pascal.scm (fpc-bootstrap-powerpc): New variable.
(fpc)[arguments]: Add cases for powerpc-linux.
[native-inputs]: Add case for fpc-binary for powerpc-linux.

Change-Id: I0d4d9dda9d4c8f70ff20031ab94f1dc439df88e2
 2023-12-16 18:05:58 +02:00
Efraim Flashner 1954a1e33d
gnu: fpc: Patch more dynamic-linker paths. 
* gnu/packages/pascal.scm (fpc)[arguments]: Patch more paths to the
dynamic-linker in the 'configure phase.

Change-Id: I0eebf1271d24e22839db0a8fd96385408067fdbf
 2023-12-16 18:05:57 +02:00
Efraim Flashner 7b949bc318
gnu: fpc: Fix building on i686-linux. 
* gnu/packages/pascal.scm (fpc)[source]: Add patch.
* gnu/packages/patches/fpc-glibc-2.34-compat.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.

Change-Id: I6fde62de63171d7e16754b36db460f4073b1979d
 2023-12-16 18:05:57 +02:00
Efraim Flashner e9e08b02b5
gnu: valgrind: Mark as unsupported on i586-gnu. 
* gnu/packages/valgrind.scm (valgrind)[supported-systems]: Remove
i586-gnu from supported systems.

Change-Id: I260b9b343c30da81d0420c92431d56d22c260cc4
 2023-12-16 18:05:57 +02:00
Efraim Flashner 580a7cc5a9
gnu: valgrind: Use correct glibc. 
* gnu/packages/valgrind.scm (valgrind/interactive)[inputs]: Replace
glibc with libc-for-target.

Change-Id: If8e428a12647c8aeb36fa90f36d7c8d12055f2b9
 2023-12-16 18:05:54 +02:00
Ricardo Wurmus d5298c5e33
gnu: r-with-tests: Update to 4.3.2. 
* gnu/packages/statistics.scm (r-with-tests): Update to 4.3.2.

Change-Id: Ifd949eb363582e533d629e573ea98c10edf127c3
 2023-12-16 13:06:15 +01:00
Tobias Geerinckx-Rice fa0563e7fa
bash completion: Complete ‘guix style -f’ with files. 
* etc/completion/bash/guix (_guix_is_dash_f):
Recognise ‘--whole-file’ as a member of the ‘-f’ family.
(_guix_complete): Add a new clause for ‘guix style’.

Reported by cmiller in #guix.

Change-Id: I3f55f7fd7fb8610dc13770ebfe70d9f65c1497af
 2023-12-10 01:00:00 +01:00
Tobias Geerinckx-Rice d993ed43b2
daemon: Sacrifice builders on OOM. 
* nix/libstore/build.cc (DerivationGoal::runChild):
Maximise our OOM score adjustment.

Change-Id: I418c763b499ca16e1ffe3c6033319112b9744f51
 2023-12-10 01:00:00 +01:00
Tobias Geerinckx-Rice 38035705ed
gnu: inxi-minimal: Update to 3.3.31-2. 
* gnu/packages/admin.scm (inxi-minimal): Update to 3.3.31-2.

Change-Id: I6645cdc0870396ef6726bed1e24af534a4e03503
 2023-12-10 01:00:00 +01:00
Tobias Geerinckx-Rice a4bbe113ff
gnu: mediainfo: Update to 23.11. 
* gnu/packages/video.scm (mediainfo): Update to 23.11.

Change-Id: Ife3dad58749d292c04d6b5cca8fb0eabf3a7a02a
 2023-12-10 01:00:00 +01:00
Tobias Geerinckx-Rice ec7d33c108
gnu: libmediainfo: Update to 23.11. 
* gnu/packages/video.scm (libmediainfo): Update to 23.11.

Change-Id: Id7967fb5ed1304055ddeea73b550bd9c5e7ec6ec
 2023-12-10 01:00:00 +01:00
Tobias Geerinckx-Rice 7a7b7c176f
gnu: iperf: Update to 3.16. 
* gnu/packages/networking.scm (iperf): Update to 3.16.

Change-Id: I8463174ba4a0773ef62d3e888332a223cefad56e
 2023-12-10 01:00:00 +01:00
Ricardo Wurmus 92f179ab20
gnu: r-tximeta: Update to 1.20.1. 
* gnu/packages/bioconductor.scm (r-tximeta): Update to 1.20.1.

Change-Id: Id29bdc8c00f957854ed5ba38c2cbbb91e04bbf78
 2023-12-15 17:47:43 +01:00
Ricardo Wurmus e19a7ca446
gnu: r-biomvrcns: Update to 1.42.2. 
* gnu/packages/bioconductor.scm (r-biomvrcns): Update to 1.42.2.

Change-Id: I956718d0ecb503546564434fbea82a886d4de9f4
 2023-12-15 17:47:43 +01:00
Ricardo Wurmus 5765ddc666
gnu: r-basilisk: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-basilisk): Update to 1.14.1.

Change-Id: I7c05a536a58ca7bc7d24fdb5f39a420611bebf45
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus 32cd9f9993
gnu: r-basilisk-utils: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-basilisk-utils): Update to 1.14.1.

Change-Id: Icda5e71c0a709e2de4c6303774c37224a9476d62
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus 1b5ffaa960
gnu: r-gviz: Update to 1.46.1. 
* gnu/packages/bioconductor.scm (r-gviz): Update to 1.46.1.

Change-Id: I10e68ee45be2cd2cddc217e75ee6667323c4dd57
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus 280162165b
gnu: r-mscoreutils: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-mscoreutils): Update to 1.14.1.

Change-Id: Ia978e23f1f0bf5a58ffa2c76a65c5f9982629aac
 2023-12-15 17:47:42 +01:00
Ricardo Wurmus 2f14829a7c
gnu: r-sparsearray: Update to 1.2.2. 
* gnu/packages/bioconductor.scm (r-sparsearray): Update to 1.2.2.

Change-Id: I96f367bf5c39c973e1c5fad3b9620bfcaf88417a
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus aa3e41026a
gnu: r-scater: Update to 1.30.1. 
* gnu/packages/bioconductor.scm (r-scater): Update to 1.30.1.

Change-Id: I5e497b654bc4a26adc6d956f728f31ae631a239c
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus 2fb96bed75
gnu: r-s4vectors: Update to 0.40.2. 
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.40.2.

Change-Id: I6201d17fa2a6be618feb26ad632b9249f87d86c5
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus ccf2d49837
gnu: r-ucell: Update to 2.6.2. 
* gnu/packages/bioconductor.scm (r-ucell): Update to 2.6.2.

Change-Id: Ie08960a237ad1515332794b23c2bd31e94299dfe
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus be56597c9d
gnu: r-variancepartition: Update to 1.32.2. 
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.32.2.
[propagated-inputs]: Add r-matrixstats.

Change-Id: I436a1db36ad910aec0fac87150c62735f6509575
 2023-12-15 17:47:41 +01:00
Ricardo Wurmus bb64a047b4
gnu: r-flowworkspace: Update to 4.14.1. 
* gnu/packages/bioconductor.scm (r-flowworkspace): Update to 4.14.1.

Change-Id: I2e950e77842add2eebeeffac2492ba0ef1aa6422
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus 2ab52103c9
gnu: r-xcms: Update to 4.0.1. 
* gnu/packages/bioconductor.scm (r-xcms): Update to 4.0.1.

Change-Id: I98dd730bb959d2483164177a3e534915d13fee44
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus e22fc284e3
gnu: r-genomicscores: Update to 2.14.2. 
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 2.14.2.

Change-Id: I00417ef0c2f9657ec39690baa52a1cd075fb69c6
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus 0d5917604c
gnu: r-dose: Update to 3.28.2. 
* gnu/packages/bioconductor.scm (r-dose): Update to 3.28.2.
[propagated-inputs]: Remove r-hpo-db and r-mpo-db; add r-yulab-utils.

Change-Id: Ia29d318cac9b1e261fb89fc4d15f8b40ec3583f3
 2023-12-15 17:47:40 +01:00
Ricardo Wurmus cff731dae5
gnu: r-lefser: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-lefser): Update to 1.12.1.

Change-Id: Iac94395b267e925116929d48abb3c28cff31504e
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus fcdd57e5fe
gnu: r-zellkonverter: Update to 1.12.1. 
* gnu/packages/bioconductor.scm (r-zellkonverter): Update to 1.12.1.

Change-Id: I0db7450b3eff32e739ea3b806dde96114caba440
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus 01f345225b
gnu: r-variantannotation: Update to 1.48.1. 
* gnu/packages/bioconductor.scm (r-variantannotation): Update to 1.48.1.

Change-Id: I51e6a6db61fc4782823f9a7f85345742b8c7ab72
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus 69126c2b9c
gnu: r-trackviewer: Update to 1.38.1. 
* gnu/packages/bioconductor.scm (r-trackviewer): Update to 1.38.1.

Change-Id: I3ec74e7c37830e7a0b3b12311e304cc2e4fe322e
 2023-12-15 17:47:39 +01:00
Ricardo Wurmus 5a231ed554
gnu: r-tcgautils: Update to 1.22.2. 
* gnu/packages/bioconductor.scm (r-tcgautils): Update to 1.22.2.

Change-Id: I9c33a55076c672fa3a6ff6c97675dee16d186a39
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus 27fab6cfee
gnu: r-rhdf5filters: Update to 1.14.1. 
* gnu/packages/bioconductor.scm (r-rhdf5filters): Update to 1.14.1.

Change-Id: I260973b51c3a8e895339d1c4b6fbed8f66ccb50c
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus be49fe22cd
gnu: r-rhdf5: Update to 2.46.1. 
* gnu/packages/bioconductor.scm (r-rhdf5): Update to 2.46.1.

Change-Id: Ia4781476ab82dd867a707e98767d8ee12d208003
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus 0f499ab3b0
gnu: r-msnbase: Update to 2.28.1. 
* gnu/packages/bioconductor.scm (r-msnbase): Update to 2.28.1.

Change-Id: I25fdd2662ab60939732cdee51fc2b53916f1d705
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus 5883f6d17f
gnu: r-genomeinfodb: Update to 1.38.2. 
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.38.2.

Change-Id: I17852db375cc7e833d100998c89751e68f3d4362
 2023-12-15 17:47:38 +01:00
Ricardo Wurmus 73e20717d0
gnu: r-edger: Update to 4.0.3. 
* gnu/packages/bioconductor.scm (r-edger): Update to 4.0.3.

Change-Id: I97d73da131092effbf2404e710389d863ba39889
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus 97d988cd23
gnu: r-champ: Update to 2.32.0. 
* gnu/packages/bioconductor.scm (r-champ): Update to 2.32.0.

Change-Id: I2058a0c0b086452ccfae5ef84884aa0b9cf51abb
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus b77fe732f0
gnu: r-annotationdbi: Update to 1.64.1. 
* gnu/packages/bioconductor.scm (r-annotationdbi): Update to 1.64.1.

Change-Id: If7f6bef70b3f4cc59c81ea68632b36c4b8449a73
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus 96af9a059b
gnu: r-infercnv: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-infercnv): Update to 1.18.1.

Change-Id: I99b0f17246ef267a58f87c1719066b1b4f198d8b
 2023-12-15 17:47:37 +01:00
Ricardo Wurmus da79581a8f
gnu: r-dmrcate: Update to 2.16.1. 
* gnu/packages/bioconductor.scm (r-dmrcate): Update to 2.16.1.
[propagated-inputs]: Remove r-dss.

Change-Id: I183971826201b19cc88eb2768716aa2e165aba1f
 2023-12-15 17:47:36 +01:00
Ricardo Wurmus ae4c47571e
gnu: r-degreport: Update to 1.38.5. 
* gnu/packages/bioconductor.scm (r-degreport): Update to 1.38.5.
[propagated-inputs]: Add r-dendextend and r-stringi.

Change-Id: I73fe47489449b46406b879dba0318d02dc3c7614
 2023-12-15 17:47:36 +01:00
Ricardo Wurmus 3dc5ddb82a
gnu: r-cellid: Update to 1.10.1. 
* gnu/packages/bioconductor.scm (r-cellid): Update to 1.10.1.

Change-Id: I74f0e39907eb293f84a2ee9d29ef5feab15b698a
 2023-12-15 17:47:36 +01:00
Ricardo Wurmus f5f19ac400
gnu: r-biocversion: Update to 3.18.1. 
* gnu/packages/bioconductor.scm (r-biocversion): Update to 3.18.1.

Change-Id: I844d321dc3716d2658ddd75a81d844f8b302af53
 2023-12-15 17:47:35 +01:00
Ricardo Wurmus 71c0e7eea6
gnu: r-bandits: Update to 1.18.1. 
* gnu/packages/bioconductor.scm (r-bandits): Update to 1.18.1.

Change-Id: Ied13d156cb7762fd6f86a5a0cccff302b684530d
 2023-12-15 17:47:35 +01:00
Ricardo Wurmus ea9441de8f
gnu: r-aseb: Update to 1.46.3. 
* gnu/packages/bioconductor.scm (r-aseb): Update to 1.46.3.

Change-Id: I7fb905224840f598261fceba67207cd71e7a73d9
 2023-12-15 17:47:35 +01:00