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Author SHA1 Message Date
Ricardo Wurmus 09ad7636e5 gnu: ant-bootstrap: Add hack to build on i686.
* gnu/packages/java-bootstrap.scm (ant-bootstrap)[arguments]: Conditionally
patch isFile checks.

Change-Id: If09594e301dc4691f564e197499acc7d7af71706
2026-04-16 14:18:34 +02:00
Ricardo Wurmus 425cb40fc2 gnu: r-seurat: Conditionally skip a test on 32-bit platforms.
* gnu/packages/cran.scm (r-seurat)[arguments]: On 32-bit platforms skip a
test.

Change-Id: I9c5eb3faed4bd3695fe81200447f201aa8081228
2026-04-16 14:18:34 +02:00
Ricardo Wurmus 508e4bafa6 gnu: r-bpcells: Build with SSE2 for on x86 32-bit platforms.
* gnu/packages/bioinformatics.scm (r-bpcells)[arguments]: Conditionally add
phase 'require-sse2.

Change-Id: I4927d9701e47dc34cc435d24c64a3043ad984f0d
2026-04-16 14:18:34 +02:00
Ricardo Wurmus c1ddc90bdf gnu: r-bpcells: Update to 0.3.1.
* gnu/packages/bioinformatics.scm (r-bpcells): Update to 0.3.1.
[arguments]: Do not patch r/configure.

Change-Id: Ia16297dc02bfecaf353de04452026df98ea5c826
2026-04-16 14:18:34 +02:00
Ricardo Wurmus fef2bae2b5 gnu: r-actuar: Conditionally skip some tests on 32-bit platforms.
* gnu/packages/cran.scm (r-actuar)[arguments]: On 32-bit platforms skip some
tests.

Change-Id: Iad305e0819f919ace9ab9fe7d20357981e2a226a
2026-04-16 14:18:33 +02:00
Ricardo Wurmus 60d405928e gnu: r-expint: Conditionally skip test on 32-bit platforms.
* gnu/packages/cran.scm (r-expint)[arguments]: On 32-bit platforms skip one
test.

Change-Id: Ifa97d90cfcf65fbdb9c920515f32c383c61d1ae6
2026-04-16 14:18:33 +02:00
Ricardo Wurmus 39c975659f gnu: r-lme4: Conditionally skip test on 32-bit platforms.
This is really questionable.  The test suite freezes in several places on
i686-linux, and it's not clear why.  It would be preferable to identify the
cause and fix that for good, but perhaps we can revisit this once the state of
R on i686-linux has improved.

* gnu/packages/cran.scm (r-lme4)[arguments]: On 32-bit platforms skip several
tests.

Change-Id: I67e963ec29cb00f66c122817898f0c6db330307f
2026-04-16 14:18:33 +02:00
Ricardo Wurmus 1129b721bd gnu: r-universalmotif: Conditionally skip test on 32-bit platforms.
* gnu/packages/bioconductor.scm (r-universalmotif)
[arguments]: On 32-bit platforms skip one test.

Change-Id: I66c046c20b0eefbaeb90c5fbf86233c175c096b4
2026-04-16 14:18:33 +02:00
Ricardo Wurmus 163d288dcf gnu: r-ballgown: Adjust for testthat compatibility.
* gnu/packages/bioconductor.scm (r-ballgown)[arguments]: Add phase
'testthat-compatibility.

Change-Id: Id8d931ee79b55b82e977eb3822537f80b55108bf
2026-04-16 14:18:33 +02:00
Ricardo Wurmus f2f6acc0c0 gnu: r-s2: Conditionally skip tests on 32-bit platforms.
* gnu/packages/cran.scm (r-s2)[arguments]: On 32-bit platforms skip some
tests.

Change-Id: Ie1ce57ad4def078c58f33ceec21338b3fb1176f7
2026-04-16 14:18:33 +02:00
Ricardo Wurmus cc58bae6e3 gnu: r-collapse: Conditionally skip tests on 32-bit platforms.
* gnu/packages/cran.scm (r-collapse)[arguments]: On 32-bit platforms skip some
tests.

Change-Id: Idd64fe930fba5b4599324ac0757bad7b0cba695f
2026-04-16 14:18:33 +02:00
Ricardo Wurmus b18d485cb5 gnu: r-cards: Conditionally skip one test.
* gnu/packages/cran.scm (r-cards)[arguments]: On 32-bit platforms skip one
test.

Change-Id: I7f0ade42f51290a862412dd3e280b6c42a81f654
2026-04-16 14:18:33 +02:00
Ricardo Wurmus d30e6043e7 gnu: r-ggplot2: Conditionally skip one test.
* gnu/packages/cran.scm (r-ggplot2)[arguments]: On 32-bit platforms skip one
test.

Change-Id: Icc6d0d6046a18ed24e91e15294c49fb28b4cc12e
2026-04-16 14:18:32 +02:00
Ricardo Wurmus 34c4e062e3 gnu: r-biocstyle: Do not build self-contained reports on 32-bit platforms.
* gnu/packages/bioconductor.scm (r-biocstyle)[arguments]: Conditionally add
phase 'prevent-pandoc-segfault.

Change-Id: I84ea57c44ceedb21e03050b4c48c9c05beedc7d7
2026-04-16 14:18:32 +02:00
Ricardo Wurmus 53dd0b21f4 gnu: proj-9.3: Fix build on 32-bit platforms.
* gnu/packages/geo.scm (proj-9.3)[arguments]: Conditionally add phase
'patch-tests to skip broken tests on 32-bit platforms.

Change-Id: I953489a7ac6a6c577d898e677df77d4acf4499c8
2026-04-16 14:18:32 +02:00
Ricardo Wurmus f7f133f29d gnu: proj: Fix build on 32-bit platforms.
* gnu/packages/geo.scm (proj)[arguments]: Conditionally add phase
'patch-tests to skip broken tests on 32-bit platforms.

Change-Id: Idf6339181f9bad128b060c2178a07735abba1e0b
2026-04-16 14:18:32 +02:00
Ricardo Wurmus e259e9401f gnu: netcdf: Fix build on 32-bit platforms.
* gnu/packages/maths.scm (netcdf)[arguments]: Conditionally pass CFLAGS to
ignore incompatible pointer types; conditionally update 'fix-tests phase to
skip two broken tests on 32-bit platforms.

Change-Id: Id5d149038275c152bbb30f0b155a2c2f7e05a76e
2026-04-16 14:18:32 +02:00
Ricardo Wurmus 26bf944f93 gnu: geos: Conditionally skip tests.
* gnu/packages/geo.scm (geos)[arguments]: Conditionally add phase
'disable-broken-tests on 32-bit platforms.

Change-Id: I9367519716ef309cb6f33e7455d4472ff5293478
2026-04-16 14:18:32 +02:00
Ricardo Wurmus c767b89d53 gnu: r-coro: Conditionally skip one test.
* gnu/packages/cran.scm (r-coro)[arguments]: On 32-bit platforms skip one
test.

Change-Id: I828ec4eae53df79ed476bd761905b78ae12e45ee
2026-04-16 14:18:32 +02:00
Ricardo Wurmus e5bc38ed46 gnu: r-timechange: Conditionally skip one test.
* gnu/packages/cran.scm (r-timechange)[arguments]: On 32-bit platforms skip one
test.

Change-Id: Idb8298941382bc2447f780e17a125ed39fe889f5
2026-04-16 14:18:32 +02:00
Ricardo Wurmus a5889682ea gnu: r-bit64: Conditionally skip two tests.
* gnu/packages/cran.scm (r-bit64)[arguments]: On 32-bit platforms skip two
tests.

Change-Id: Iac69d9b9ab479e3756977b6669e4a9f2802233a0
2026-04-16 14:18:31 +02:00
Ricardo Wurmus 771d3a8237 gnu: r-data-table: Fix a test on 32 bit machines.
* gnu/packages/cran.scm (r-data-table)[arguments]: Conditionally add phase
'fix-bad-test.

Change-Id: Iad9887debcb8a3e65e8495faae778266e42f1ead
2026-04-16 14:18:31 +02:00
Ricardo Wurmus 2c15d5dd96 gnu: r-bit64: Update home-page field.
The home page here was for the ff package, not bit64.

* gnu/packages/cran.scm (r-bit64)[home-page]: Update to CRAN project page.

Change-Id: Idcc1972bfe594185cdee29d8b4e4e0259941e784
2026-04-16 14:18:31 +02:00
Ricardo Wurmus 6038ca0133 gnu: r-accept: Update to 1.0.2.
* gnu/packages/cran.scm (r-accept): Update to 1.0.2.
[propagated-inputs]: Add r-hardhat, r-tibble, r-tidyselect, r-vctrs, and r-vetiver.
[native-inputs]: Add r-spelling and r-testthat.

Change-Id: I6b4782f8beb8e23f5e8987e1f00f34edec59c4b5
2026-04-16 14:18:31 +02:00
Ricardo Wurmus a0445cebab gnu: Add r-vetiver.
* gnu/packages/cran.scm (r-vetiver): New variable.

Change-Id: Ia60cb1ca09daf342a2b8df826ed5306ea51a284f
2026-04-16 14:18:31 +02:00
Ricardo Wurmus 682c9758ab gnu: Add r-rapidoc.
* gnu/packages/cran.scm (r-rapidoc): New variable.

Change-Id: Ia43f969774fbaf1bdff69767d872ab113583c5db
2026-04-16 14:18:31 +02:00
Ricardo Wurmus e8ea5be38b gnu: Add r-pins.
* gnu/packages/cran.scm (r-pins): New variable.

Change-Id: Ie69fde0b4252d7086a6dadab4645b7885b11f18f
2026-04-16 14:18:31 +02:00
Ricardo Wurmus 8e24b5c554 gnu: Add r-bundle.
* gnu/packages/cran.scm (r-bundle): New variable.

Change-Id: I7694f43e4aa4ebc421a0e946d5d3ddafd30aa3ef
2026-04-16 14:18:31 +02:00
Ricardo Wurmus f4d6e90ef0 gnu: r-bbotk: Update to 1.10.0.
* gnu/packages/cran.scm (r-bbotk): Update to 1.10.0.
[native-inputs]: Remove r-processx, r-redux, and r-rush.

Change-Id: I3add7f5c00d752277dfae3199a9b37509869485c
2026-04-16 14:18:31 +02:00
Ricardo Wurmus 46197b7631 gnu: Add r-embed.
* gnu/packages/cran.scm (r-embed): New variable.

Change-Id: I33d35f8c58545f53c346cd656782c4ed526d17b4
2026-04-16 14:18:30 +02:00
Ricardo Wurmus 8bfc6bcf6c gnu: r-yardstick: Update to 1.4.0.
* gnu/packages/cran.scm (r-yardstick): Update to 1.4.0.
[properties]: Record updater-ignored-native-inputs.
[native-inputs]: Add r-epir, r-handtill2001, and r-orf.

Change-Id: I27ce3c780b776ff985df7eb72473011cbd5e93d3
2026-04-16 14:18:30 +02:00
Ricardo Wurmus 0c1b7a1bc5 gnu: Add r-orf.
* gnu/packages/cran.scm (r-orf): New variable.

Change-Id: I422f1fa4341b6835d2fd57057c1e1df49a0ec335
2026-04-16 14:18:30 +02:00
Ricardo Wurmus cfb1e1e1ce gnu: Add r-epir.
* gnu/packages/cran.scm (r-epir): New variable.

Change-Id: Ic2eba444f2f3cdac8420bfa6b391e763f62c7b4d
2026-04-16 14:18:30 +02:00
Ricardo Wurmus dd4fdcf78b gnu: Add r-handtill2001.
* gnu/packages/cran.scm (r-handtill2001): New variable.

Change-Id: I09e71b5286356b8c6d0cda0b6914e6af07074145
2026-04-16 14:18:30 +02:00
Ricardo Wurmus 48ba359b1e gnu: Add r-cereal.
* gnu/packages/cran.scm (r-cereal): New variable.

Change-Id: I3b5c8854f49c732cc003529e8a82f4a37bd6c5bf
2026-04-16 14:18:30 +02:00
Ricardo Wurmus a0d0ebe117 gnu: r-s4vectors: Update to 0.48.1.
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.48.1.

Change-Id: I8b856c0e0679262ec5be2a1ae655fd2aa9f6d263
2026-04-16 14:18:30 +02:00
Ricardo Wurmus c72541ebf1 gnu: r-biocviews: Update to 1.78.2.
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.78.2.

Change-Id: I3aa91454ea13045bb4f4ebe36700c5c36ee28816
2026-04-16 14:18:30 +02:00
Ricardo Wurmus 7e9aa9b851 gnu: r-wiggleplotr: Update to 1.34.1.
* gnu/packages/bioconductor.scm (r-wiggleplotr): Update to 1.34.1.

Change-Id: I3e9df308ff374a62d2ae41eed6df7297411ee665
2026-04-16 14:18:29 +02:00
Ricardo Wurmus 6784e48652 gnu: r-enmix: Update to 1.46.2.
* gnu/packages/bioconductor.scm (r-enmix): Update to 1.46.2.

Change-Id: I04675d3351d71cf7132918f3840a236ba64ad2c0
2026-04-16 14:18:29 +02:00
Ricardo Wurmus 577348891d gnu: r-delayedarray: Update to 0.36.1.
* gnu/packages/bioconductor.scm (r-delayedarray): Update to 0.36.1.

Change-Id: I36e6c48575213cbdac4c7351bfd5fc49d2ca1faf
2026-04-16 14:18:29 +02:00
Ricardo Wurmus 87cd5dab52 gnu: r-stars: Update to 0.7-2.
* gnu/packages/cran.scm (r-stars): Update to 0.7-2.

Change-Id: If5583378486a10f644dd7b9098c332f290d4a765
2026-04-16 14:18:29 +02:00
Ricardo Wurmus f887d7f5a7 gnu: r-pbdmpi: Update to 0.5-5.
* gnu/packages/cran.scm (r-pbdmpi): Update to 0.5-5.

Change-Id: I34ade16a4af9530a59aaf0698c1baf82262a1a9f
2026-04-16 14:18:29 +02:00
Ricardo Wurmus 4640210f65 gnu: r-mlr3: Update to 1.6.0.
* gnu/packages/cran.scm (r-mlr3): Update to 1.6.0.

Change-Id: I553b49832b9c56d43501edce7858abbd5c1062e7
2026-04-16 14:18:29 +02:00
Ricardo Wurmus 9e1463d608 gnu: r-lobstr: Update to 1.2.1.
* gnu/packages/cran.scm (r-lobstr): Update to 1.2.1.

Change-Id: If088ac344520b04407c7b6f0e32fa4fb02a4cda8
2026-04-16 14:18:29 +02:00
Ricardo Wurmus ab0c33e246 gnu: r-igraph: Update to 2.2.3.
* gnu/packages/cran.scm (r-igraph): Update to 2.2.3.

Change-Id: I23dfd5b2a7685014b7aa86cf46b0a999081cce3e
2026-04-16 14:18:29 +02:00
Ricardo Wurmus f3b5ecb37f gnu: r-cpp11: Update to 0.5.4.
* gnu/packages/cran.scm (r-cpp11): Update to 0.5.4.

Change-Id: Ib0f6d7898c26fa5b5a38a2da27161cd6e954f7cd
2026-04-16 14:18:28 +02:00
Ricardo Wurmus 6d7da84ecb gnu: r-spatstat: Update to 3.6-0.
* gnu/packages/cran.scm (r-spatstat): Update to 3.6-0.

Change-Id: I05e18e899f11b9ed3227fd0234d97274dfa8b291
2026-04-16 14:18:28 +02:00
Ricardo Wurmus 0df03cd67b gnu: r-hardhat: Update to 1.4.3.
* gnu/packages/cran.scm (r-hardhat): Update to 1.4.3.

Change-Id: I92526d995ef4913a20ff879e99b079e27c7d0ef4
2026-04-16 14:18:28 +02:00
Ricardo Wurmus 20b277789b gnu: r-quanteda: Update to 4.4.
* gnu/packages/cran.scm (r-quanteda): Update to 4.4.

Change-Id: I72e65e0d8a40b9a46a3353a87663c85b2dc7e4fb
2026-04-16 14:18:28 +02:00
Ricardo Wurmus d0f30763af gnu: r-sccore: Update to 1.0.7.
* gnu/packages/cran.scm (r-sccore): Update to 1.0.7.
[propagated-inputs]: Remove r-seurat.

Change-Id: Ib8b66b4c26c2f06965d64f14ac561b319a422b2f
2026-04-16 14:18:28 +02:00
Ricardo Wurmus 9215c2e4fe gnu: r-spamm: Update to 4.6.65.
* gnu/packages/cran.scm (r-spamm): Update to 4.6.65.

Change-Id: Id033c8d33ca69a7f44a7b6dd9806e534778b4cd0
2026-04-16 14:18:28 +02:00
Ricardo Wurmus 4bc5e6b7a0 gnu: r-rio: Update to 1.3.0.
* gnu/packages/cran.scm (r-rio): Update to 1.3.0.
[native-inputs]: Remove r-jpeg.

Change-Id: Ie60d8e73148286b9cb0f1f5f2405f76aa3d8d22b
2026-04-16 14:18:28 +02:00
Ricardo Wurmus 32bdc39622 gnu: r-nanonext: Update to 1.8.2.
* gnu/packages/cran.scm (r-nanonext): Update to 1.8.2.

Change-Id: I2587c0be9c892de4379e9f8b50eb9ec33df97f2f
2026-04-16 14:18:27 +02:00
Ricardo Wurmus 43cf547c88 gnu: r-ucminf: Update to 1.2.3.
* gnu/packages/cran.scm (r-ucminf): Update to 1.2.3.

Change-Id: I486976827be08ec03c45fef94b745befde3f6907
2026-04-16 14:18:27 +02:00
Ricardo Wurmus 8a258c6d3d gnu: r-statsexpressions: Update to 1.7.4.
* gnu/packages/cran.scm (r-statsexpressions): Update to 1.7.4.

Change-Id: I0b79a241393d26a8c026088b0e424b38e4472c9e
2026-04-16 14:18:27 +02:00
Ricardo Wurmus 0186ba19ff gnu: r-recipes: Update to 1.3.2.
* gnu/packages/cran.scm (r-recipes): Update to 1.3.2.

Change-Id: Id2e16bce4db896983b3185c1c5b2e23196a793b5
2026-04-16 14:18:27 +02:00
Ricardo Wurmus baea13f534 gnu: r-cvxr: Update to 1.8.2.
* gnu/packages/cran.scm (r-cvxr): Update to 1.8.2.

Change-Id: I2e8bda89edb439a667eb199abf7ae15b593b3071
2026-04-16 14:18:27 +02:00
Ricardo Wurmus c74520f47a gnu: r-circlize: Update to 0.4.18.
* gnu/packages/cran.scm (r-circlize): Update to 0.4.18.

Change-Id: I161c5eef8f7db52620ff87fc298ed5771cc914f8
2026-04-16 14:18:27 +02:00
Ricardo Wurmus 602cd07f0d gnu: r-geosphere: Update to 1.6-8.
* gnu/packages/cran.scm (r-geosphere): Update to 1.6-8.
[propagated-inputs]: Remove r-sp.

Change-Id: Ibb73b0b53cd78de120c604d75a0549820eb3200e
2026-04-16 14:18:27 +02:00
Ricardo Wurmus 1217281391 gnu: r-magrittr: Update to 2.0.5.
* gnu/packages/cran.scm (r-magrittr): Update to 2.0.5.
[native-inputs]: Add r-rlang.

Change-Id: Icd245b27401f4f0ba1c591ae1dd7a8e651201405
2026-04-16 14:18:27 +02:00
Ricardo Wurmus fa167200ac gnu: r-ellipsis: Update to 0.3.3.
* gnu/packages/cran.scm (r-ellipsis): Update to 0.3.3.

Change-Id: I098570b2c7e05c2a67c3a91e4be4e222cb7deb15
2026-04-16 14:18:26 +02:00
Ricardo Wurmus 8a96d0e080 gnu: r-lazyeval: Update to 0.2.3.
* gnu/packages/cran.scm (r-lazyeval): Update to 0.2.3.
[propagated-inputs]: Add r-rlang.

Change-Id: I29e122307aa6b2e67258af2ca96cfc873fca973d
2026-04-16 14:18:26 +02:00
Ricardo Wurmus a5c7de10dd gnu: r-fpeek: Update to 0.2.1.
* gnu/packages/cran.scm (r-fpeek): Update to 0.2.1.

Change-Id: I65cec23ef7def6a4dd07b10345a33ed87465be90
2026-04-16 14:18:26 +02:00
Ricardo Wurmus b7eb596b75 gnu: r-fingerprint: Update to 3.5.10.
* gnu/packages/cran.scm (r-fingerprint): Update to 3.5.10.

Change-Id: Id7412db399a6bf6254f2ee154e3150c78486acab
2026-04-16 14:18:26 +02:00
Ricardo Wurmus cfb14a79ef gnu: r-rush: Update to 1.0.1.
* gnu/packages/cran.scm (r-rush): Update to 1.0.1.

Change-Id: I8862fb80bbace1718d50a326220665519449d556
2026-04-16 14:18:26 +02:00
Ricardo Wurmus 77741f8a3d gnu: r-rlang: Update to 1.2.0.
* gnu/packages/cran.scm (r-rlang): Update to 1.2.0.

Change-Id: Ibc781c6de7a2e3c0bb0ca4e0b1242f6dd68ac590
2026-04-16 14:18:26 +02:00
Ricardo Wurmus eabb9f6b9f gnu: r-ggstatsplot: Update to 0.13.6.
* gnu/packages/cran.scm (r-ggstatsplot): Update to 0.13.6.

Change-Id: If4bf6c55a2bde9d629f7a9fc33456f256da8302d
2026-04-16 14:18:26 +02:00
Ricardo Wurmus d0a7a1f1f1 gnu: r-dplyr: Update to 1.2.1.
* gnu/packages/cran.scm (r-dplyr): Update to 1.2.1.

Change-Id: I3821473e4964b0d367915ad85c5b47927e35ee48
2026-04-16 14:18:26 +02:00
Ricardo Wurmus 00ccd3eeea gnu: r-cftime: Update to 1.7.3.
* gnu/packages/cran.scm (r-cftime): Update to 1.7.3.

Change-Id: I621d2a7cc6646369e963db137f089a0236b16199
2026-04-16 14:18:26 +02:00
Ricardo Wurmus f518b950c1 gnu: r-backports: Update to 1.5.1.
* gnu/packages/cran.scm (r-backports): Update to 1.5.1.

Change-Id: Ia363be468b5888a4d1b5d390a8a7c7eb07ea9cc1
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 42a1a2172e gnu: r-ggplot2: Disable one failing test.
* gnu/packages/cran.scm (r-ggplot2)[arguments]: Disable a failing test.

Change-Id: I41c5ec8790148f7ffe1397d3b9694f1cd8e0c739
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 9c11c794d8 gnu: Add r-timereg.
* gnu/packages/cran.scm (r-timereg): New variable.

Change-Id: Ifb43c8f624ac79bb16361912ccf9cbdb623356ab
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 42ac4eb3fa gnu: r-lava: Update to 1.9.0.
* gnu/packages/cran.scm (r-lava): Update to 1.9.0.
[native-inputs]: Add r-vdiffr.
[arguments]: Disable some failing tests.

Change-Id: I6025e511e46f8d7aa6b3864b411e5aacd86a06d0
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 1bf6dde0d8 gnu: r-flames: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-flames)[arguments]: Remove
phase 'disable-some-tests; specify #:skipped-tests instead.

Change-Id: I75024c6b9c5316e1b4bef80c5e60d77699b71e9b
2026-04-16 14:18:25 +02:00
Ricardo Wurmus c8c2f12858 gnu: r-ncdfflow: Enable all tests.
* gnu/packages/bioconductor.scm (r-ncdfflow)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: I5c4c64f992b33af1ecaa42b833a8f2cb3f2b47d6
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 83a6b8589e gnu: r-flowclust: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-flowclust)[arguments]: Remove
phase 'delete-bad-tests; specify #:skipped-tests instead; disable one more
test.

Change-Id: I18369d410ad9cff4db7afcb15fd5292b3c6c0177
2026-04-16 14:18:25 +02:00
Ricardo Wurmus bad269b657 gnu: r-variantfiltering: Enable all tests.
* gnu/packages/bioconductor.scm (r-variantfiltering)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: I76ef169743ecbd5c75fb115ab5adf8c46128d068
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 68adb129ed gnu: r-beachmat: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-beachmat)[arguments]: Remove
phase 'delete-bad-tests; specify #:skipped-tests
instead.

Change-Id: I17f4999f3747f4e72015ae64872e2c877a157267
2026-04-16 14:18:25 +02:00
Ricardo Wurmus 6e7ae215a8 gnu: r-rhdf5lib: Use G-expressions and fix test instead of disabling it.
* gnu/packages/bioconductor.scm (r-rhdf5lib)[arguments]: Use G-expressions;
fix library version check instead of disabling the test.

Change-Id: I78e8cfd9d2588517b0911dde5fc8aa53d4f67892
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 321f4a6b8f gnu: r-sgseq: Enable all tests.
* gnu/packages/bioconductor.scm (r-sgseq)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: I25cfd6620b6573057c161200bd5fad99a19e2bdd
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 75c3255f9c gnu: r-metagenomeseq: Enable all tests.
* gnu/packages/bioconductor.scm (r-metagenomeseq)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: I17d0d965b6d7702dfd6eb24eef288a51915aa3f6
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 0b5f9d29ac gnu: r-graph: Enable tests.
* gnu/packages/bioconductor.scm (r-graph)[arguments]: Enable tests.

Change-Id: I9307f27a1e36e439b3d0c5680faa558981dc5d3a
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 267dcb3fac gnu: r-summarizedexperiment: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-summarizedexperiment)[arguments]: Remove
phase 'delete-bad-tests; specify #:test-directory and #:skipped-tests
instead.

Change-Id: I6229ec548d21f30534f9d279b3aae8847e55a77e
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 7ea19ce41b gnu: r-batchelor: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-batchelor)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: Icd8aaae97130eed2e3c1b1629ac1dd9d18287fee
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 85f2e629ff gnu: r-biocsingular: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-biocsingular)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: I8b8f91562233c9cca180eeda50f5d6dc4bc1cd37
2026-04-16 14:18:24 +02:00
Ricardo Wurmus 235fc028b6 gnu: r-glmgampoi: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-glmgampoi)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead; enable tests.

Change-Id: I5de95bf59482d706bf80bb6fc4cdcf6da89d2afd
2026-04-16 14:18:24 +02:00
Ricardo Wurmus b10183d56c gnu: r-variantannotation: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-variantannotation)[arguments]: Remove phase
'delete-bad-tests; specify #:test-directory and #:skipped-tests instead.

Change-Id: I17532f8a6e23b52591f0593677e8cd88aacbfc23
2026-04-16 14:18:24 +02:00
Ricardo Wurmus fd70593d4d gnu: r-rhdf5: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-rhdf5)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead; enable tests.

Change-Id: I2a440a41b6d527c5c91786345db49532fdca5b2c
2026-04-16 14:18:23 +02:00
Ricardo Wurmus b342b5fed2 gnu: r-regioner: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-regioner)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: Ic90c620653ffa6d2ad6eab4ded05e4bbfe62d279
2026-04-16 14:18:23 +02:00
Ricardo Wurmus c28d458561 gnu: r-msnbase: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-msnbase)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: Icb2170c300d80dc5f955b4ff1b97f1e33385a7c2
2026-04-16 14:18:23 +02:00
Ricardo Wurmus 43ee8d6607 gnu: r-genomicdatacommons: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-genomicdatacommons)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: I02a6f73db89104c90e6a4301240a1fd20e35a636
2026-04-16 14:18:23 +02:00
Ricardo Wurmus 07683d78f7 gnu: r-escape: Enable all tests.
* gnu/packages/bioconductor.scm (r-escape)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: I6d0af6daaed7b5c142ccfdfc162ba57968d1ce17
2026-04-16 14:18:23 +02:00
Ricardo Wurmus 9aaf1ee2de gnu: r-category: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-category)[arguments]: Remove phase
'delete-bad-tests; specify #:test-directory and #:skipped-tests instead.

Change-Id: If573e4ea497fdd1f3654433d2854f0a821455bd6
2026-04-16 14:18:23 +02:00
Ricardo Wurmus e2a7eded3f gnu: r-treeio: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-treeio)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead; enable more tests.

Change-Id: I55fccf144c233bfd4115b9201c1550e9d477e6a4
2026-04-16 14:18:23 +02:00
Ricardo Wurmus f9b627d13d gnu: r-derfinder: Enable all tests.
* gnu/packages/bioconductor.scm (r-derfinder)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: Ib4e5e8557209b5a46b48e77c52c6355676b3e577
2026-04-16 14:18:23 +02:00
Ricardo Wurmus 2069c7f09e gnu: r-bumphunter: Disable tests instead of patching them.
After patching we didn't run any tests anyway.

* gnu/packages/bioconductor.scm (r-bumphunter)[arguments]: Remove phase
'delete-bad-tests; disable tests instead.

Change-Id: I6ba13013c6038b272204ae4191111714d835be05
2026-04-16 14:18:23 +02:00
Ricardo Wurmus 2b41447efd gnu: r-txdbmaker: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-txdbmaker)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: I35e1fb2dce920cb0a59a063eb2b511b636e46546
2026-04-16 14:18:22 +02:00
Ricardo Wurmus 6e7d1b5e4c gnu: r-scrapper: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-scrapper)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: I25b29604508732e64a7efb72b9635e7bc8685356
2026-04-16 14:18:22 +02:00
Ricardo Wurmus fb45558493 gnu: r-plyranges: Enable all tests.
* gnu/packages/bioconductor.scm (r-plyranges)[arguments]: Remove phase
'disable-bad-tests.

Change-Id: I7539e3c6f8ed26a66bf9d4ef65ecb11bee74421d
2026-04-16 14:18:22 +02:00
Ricardo Wurmus c2f81ec3cb gnu: r-transcriptr: Enable all tests.
* gnu/packages/bioconductor.scm (r-transcriptr)[arguments]: Remove phase
'disable-bad-tests.

Change-Id: Ic0781089808a2468797d03e968aa696553409801
2026-04-16 14:18:22 +02:00
Ricardo Wurmus 2aa8e98b8c gnu: r-tcgautils: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-tcgautils)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: I29a788dc229c599207d89d7f4dbd49c3c9f06f1e
2026-04-16 14:18:22 +02:00
Ricardo Wurmus 2dccc15f1d gnu: r-screpertoire: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-screpertoire)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: Ieac662ca919889a71861cb6b1f08febab2487f54
2026-04-16 14:18:22 +02:00
Ricardo Wurmus eb32d1bb83 gnu: r-chippeakanno: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-chippeakanno)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: Id7e7cd02d1b0b02f62022b9d55e69c867200e213
2026-04-16 14:18:22 +02:00
Ricardo Wurmus 16f703f4f3 gnu: r-msnid: Enable all tests.
* gnu/packages/bioconductor.scm (r-msnid)[arguments]: Remove phase
'disable-bad-tests.

Change-Id: Iaf459f89d1f6d82a486a0dcd860cff746ee140a0
2026-04-16 14:18:22 +02:00
Ricardo Wurmus 7118c74599 gnu: r-mosdef: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-mosdef)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: Iadf53cbebf8e30b1cd8a4a793a7853b01318de39
2026-04-16 14:18:22 +02:00
Ricardo Wurmus 96d10fcf05 gnu: r-h5mread: Enable all tests.
* gnu/packages/bioconductor.scm (r-h5mread)[arguments]: Remove phase
'disable-bad-tests.

Change-Id: I8a20a311a4c8c2177c07ab5d0b59c8ea5e369c73
2026-04-16 14:18:21 +02:00
Ricardo Wurmus 025efb94b5 gnu: r-immapex: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-immapex)[arguments]: Remove phase
'skip-bad-tests; specify #:skipped-tests instead.

Change-Id: Icb90decad077e6e2b9f68b618a983b8251954791
2026-04-16 14:18:21 +02:00
Ricardo Wurmus eb8e45a644 gnu: r-rcas: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-rcas)[arguments]: Remove phase
'skip-bad-tests; specify #:skipped-tests instead.

Change-Id: Ib4497fa70e0b61267b61d4fdf70e3e5abd0c1af9
2026-04-16 14:18:21 +02:00
Ricardo Wurmus c81b2b1e2f gnu: r-karyoploter: Enable all tests.
* gnu/packages/bioconductor.scm (r-karyoploter)[arguments]: Remove phase
'disable-bad-tests.

Change-Id: I3d5727327d1da4ba30bd8cd8d9251100329e4cac
2026-04-16 14:18:21 +02:00
Ricardo Wurmus 67c8823b19 gnu: r-sanssouci: Update to 0.16.2-1.fcd60da.
* gnu/packages/bioconductor.scm (r-sanssouci): Update to 0.16.2-1.fcd60da.
[arguments]: Remove phase 'delete-bad-tests.
[propagated-inputs]: Remove r-rcpp and r-rcpparmadillo; add r-matrixtests and
r-rlang.
[native-inputs]: Remove r-ggplot2; add r-knitr.

Change-Id: I30fa708d0a1873d78fa2350e5933e807ccaae821
2026-04-16 14:18:21 +02:00
Ricardo Wurmus 004fe76b40 gnu: r-cicero-monocle3: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-cicero-monocle3)[arguments]: Remove phase
'skip-bad-tests; specify #:skipped-tests instead.

Change-Id: I3ab92000982c97e95e4b157dcf3cfe1d49f056f3
2026-04-16 14:18:21 +02:00
Ricardo Wurmus c36844c511 gnu: r-mutationalpatterns: Enable all tests.
* gnu/packages/bioconductor.scm (r-mutationalpatterns)[arguments]: Remove
phase 'skip-bad-tests.

Change-Id: I51ee4d02fd12e34100a6823a8ba71e117bc618a1
2026-04-16 14:18:21 +02:00
Ricardo Wurmus 3fef246625 gnu: r-bamsignals: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-bamsignals)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: Ifbb26ef31debc2ad43eb1265c7916b24bfa140ae
2026-04-16 14:18:21 +02:00
Ricardo Wurmus 014493dac3 gnu: r-biomart: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-biomart)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: I98c167685c07453fd8fa8b8c7700c21591d043af
2026-04-16 14:18:21 +02:00
Ricardo Wurmus 9afe3041c7 gnu: r-biocset: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-biocset)[arguments]: Remove phase
'delete-bad-tests; specify #:skipped-tests instead.

Change-Id: Ibcdfdca6e35869e260a8f02deddacaa59002c7f1
2026-04-16 14:18:20 +02:00
Ricardo Wurmus e74e74a2c5 gnu: r-zellkonverter: Enable tests by bypassing Conda.
* gnu/packages/bioconductor.scm (r-zellkonverter)[arguments]: Enable all tests
but one; add phase 'basilisk-configuration.
[inputs]: Add python-anndata, python-h5py, python-natsort, python-numpy,
python-pandas, python-scipy, and python-wrapper.

Change-Id: I4eb5e34ab540bdeea64f6b8629bb8f17d24c3663
2026-04-16 14:18:20 +02:00
Ricardo Wurmus fa64b9d32f gnu: r-hdf5array: Update comment.
* gnu/packages/bioconductor.scm (r-hdf5array)[arguments]: Update comment on
why we delete a test.

Change-Id: Ibefbe960a12969337a63329d511d6c0891895c94
2026-04-16 14:18:20 +02:00
Ricardo Wurmus dfcf958b81 gnu: r-basilisk: Patch to bypass Conda.
* gnu/packages/bioconductor.scm (r-basilisk)[arguments]: Add phase
'patch-for-guix.

Change-Id: I8bcfd78da0818235a3ab1c00aae8dafdc8aa57aa
2026-04-16 14:18:20 +02:00
Ricardo Wurmus a6451cbd8b gnu: r-decoupler: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-decoupler)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: I40e3ba1539ee4dc5d471c547a5208317f2a7600e
2026-04-16 14:18:20 +02:00
Ricardo Wurmus 38967414c8 gnu: r-cner: Remove custom phases, enable all tests.
* gnu/packages/bioconductor.scm (r-cner)[arguments]: Remove phases
'disable-bad-tests and 'fix-gcc-14-strictness.

Change-Id: I116538acce4dacad5550727dba14bb72bb8905f4
2026-04-16 14:18:20 +02:00
Ricardo Wurmus c37180cda7 gnu: r-chromvar: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-chromvar)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: Ia5419e9be986c9600372de103c0ee5353a194346
2026-04-16 14:18:20 +02:00
Ricardo Wurmus 64713e8899 gnu: r-mscoreutils: Enable all tests.
* gnu/packages/bioconductor.scm (r-mscoreutils)[arguments]: Remove phase
'disable-bad-tests.

Change-Id: I6fa331a8110d3923f7f1394023cfa81aa2a1b837
2026-04-16 14:18:20 +02:00
Ricardo Wurmus e115142ef4 gnu: r-abn: Enable all tests.
* gnu/packages/bioconductor.scm (r-abn)[arguments]: Remove phase
'delete-bad-tests.

Change-Id: I78978dfc6e606c90d24c6ef6b4cf0ed5f1af3492
2026-04-16 14:18:20 +02:00
Ricardo Wurmus 870a1e0f53 gnu: r-posterior: Update to 1.7.0.
* gnu/packages/cran.scm (r-posterior): Update to 1.7.0.

Change-Id: I7053e29e54d42cbb82a45d19831accc849df796a
2026-04-16 14:18:19 +02:00
Ricardo Wurmus 22cc7ac54a gnu: r-processx: Update to 3.8.7.
* gnu/packages/cran.scm (r-processx): Update to 3.8.7.

Change-Id: I69d8e6a7d8627f851b066b00e4e74340767facfb
2026-04-16 14:18:19 +02:00
Ricardo Wurmus b50b65cf1b gnu: r-pkgload: Update to 1.5.1.
* gnu/packages/cran.scm (r-pkgload): Update to 1.5.1.

Change-Id: Ib774f4e6a77be5d7358673485337248e47388700
2026-04-16 14:18:19 +02:00
Ricardo Wurmus 99bd3c90c5 gnu: r-ps: Update to 1.9.2.
* gnu/packages/cran.scm (r-ps): Update to 1.9.2.

Change-Id: I44542f83ac5880a79f940ab6702805812d3414e1
2026-04-16 14:18:19 +02:00
Ricardo Wurmus b7383c7929 gnu: r-conos: Update to 1.5.3.
* gnu/packages/bioconductor.scm (r-conos): Update to 1.5.3.

Change-Id: I1f2b0773ab03051dd4c82f991196c0c7ac77063f
2026-04-16 14:18:19 +02:00
Ricardo Wurmus f185250466 gnu: r-barcodetrackr: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-barcodetrackr)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: Ibe719fb6a2395c31c67788255d7df95988962b4c
2026-04-16 14:18:19 +02:00
Ricardo Wurmus f81dbc1d9d gnu: r-basics: Replace custom phase with SKIPPED-TESTS argument.
* gnu/packages/bioconductor.scm (r-basics)[arguments]: Remove phase
'disable-bad-tests; specify #:skipped-tests instead.

Change-Id: I2948991cebaab753c496ec272a9f82c5f359ca2d
2026-04-16 14:18:16 +02:00
Peter Polidoro 0cd40ba2ab gnu: freecad: Update to 1.1.1.
* gnu/packages/engineering.scm (freecad): Update to 1.1.1.

Change-Id: I0b6d872a907f46979a5d102c244835d7af7f11ec
Signed-off-by: Andreas Enge <andreas@enge.fr>
2026-04-16 12:43:38 +02:00
Andreas Enge 857540e6cb gnu: python-geventhttpclient: Update to 2.3.9.
* gnu/packages/python-web.scm (python-geventhttpclient): Update to 2.3.9.

Change-Id: I83ff865b8ae052d24f9920b3d5c029e7c91373cc
2026-04-16 12:43:38 +02:00
Hilton Chain 0d16098802 gnu: fcitx5: Add GUIX_GTK2_IM_MODULE_FILE search path.
* gnu/packages/fcitx5.scm (fcitx5) [native-search-paths]: Add
GUIX_GTK2_IM_MODULE_FILE.

Merges guix/guix!7826
Change-Id: I1ab296cfa7b424196bd7383fd86e69c8fed0355f
Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2026-04-16 18:37:11 +08:00
Sharlatan Hellseher eb2482a352 gnu: libftdi: Fix build on python-3.12.
* gnu/packages/libftdi.scm (libftdi)[native-inputs]: Remove swig-4.0;
add python-setuptools and swig.

Change-Id: Idd7c1c616191778c7176ef50007404d1628c914e
2026-04-16 10:35:42 +01:00
Sharlatan Hellseher 3ffa9e2742 gnu: fdroidserver: Update to 2.4.3.
* gnu/packages/android.scm (fdroidserver): Update to 2.4.3.
[source]: Switch to git-fetch.
[propagated-inputs]: Remove python-argcomplete, python-docker,
python-mwclient, python-pyasn1, and python-pyasn1-modules.

Change-Id: I5f184eb4df48ee160091ffa55bb1e9a0ca8c0c40
2026-04-16 10:35:10 +01:00
Sharlatan Hellseher 7a4e3229f7 gnu: sdkmanager: Adjust inputs and test backend.
* gnu/packages/android.scm (sdkmanager):
[arguments] <test-backend>: Use unittest.
[phases]{check}: Use default phase.
[inputs]:  Move from here ...
[propagated-inputs]: ... to here.

Change-Id: I6d976dbf7cee39beda89ea9719dcc1e340da66d9
2026-04-16 10:35:10 +01:00
Sharlatan Hellseher a8103c1b7c gnu: python-asyncinject: Update to 0.6.1.
* gnu/packages/python-xyz.scm (python-asyncinject): Update to 0.6.1.
[source]: Switch to git-fetch.
[native-inputs]: Remove python-wheel.

Change-Id: I097308d486aa6dc0a60f696389413dba2fd79b09
2026-04-16 10:34:50 +01:00
John Kehayias f77bbf8016 gnu: steam-devices-udev-rules: Update to 1.0.0.61-2.7dde9ec.
* gnu/packages/games.scm (steam-devices-udev-rules): Update to 1.0.0.61-2.7dde9ec.

Change-Id: If5931e836978b27d09e128cb5b581292eebcde96
2026-04-15 23:47:42 -04:00
14 changed files with 1205 additions and 1281 deletions
+12 -20
View File
@@ -765,7 +765,7 @@ file system.")
(sha256
(base32 "0r3xwk8xsfxvmxyw3d57sy2i9by24g0l1jl40735jiac9mypcg7n"))))
(build-system pyproject-build-system)
(inputs (list python-requests python-argcomplete python-urllib3
(propagated-inputs (list python-requests python-argcomplete python-urllib3
python-looseversion gnupg))
(native-inputs (list python-setuptools python-wheel python-requests-cache
python-defusedxml))
@@ -773,8 +773,7 @@ file system.")
(list $SSL_CERT_FILE))
(arguments
(list
#:test-flags
#~(list "-k" "test_*")
#:test-backend #~'unittest
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'patch-tests
@@ -793,11 +792,7 @@ file system.")
(lambda _
(substitute* "sdkmanager.py"
(("gpgv")
(string-append #$(this-package-input "gnupg") "/bin/gpgv")))))
(replace 'check
(lambda* (#:key tests? test-flags #:allow-other-keys)
(when tests?
(apply invoke "python" "-m" "unittest" test-flags)))))))
(string-append #$(this-package-input "gnupg") "/bin/gpgv"))))))))
(home-page "https://gitlab.com/fdroid/sdkmanager")
(synopsis "Replacement for Android sdkmanager written in Python")
(description
@@ -1182,14 +1177,16 @@ for communicating with Xiaomi smart appliances over miIO and MIoT protocols.")
(define-public fdroidserver
(package
(name "fdroidserver")
(version "2.4.2")
(version "2.4.3")
(source
(origin
(method url-fetch)
(uri (pypi-uri "fdroidserver" version))
(method git-fetch)
(uri (git-reference
(url "https://gitlab.com/fdroid/fdroidserver")
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32
"06xybginrwi5c7bw000wz5s5hzi0aqrxskzwh8qc6wv463w2djax"))))
(base32 "1745fqxr2qfrls4wr6x9w1262b9pxmw9yvzd9b71ya2qmj74q17n"))))
(build-system pyproject-build-system)
(arguments
(list
@@ -1200,22 +1197,17 @@ for communicating with Xiaomi smart appliances over miIO and MIoT protocols.")
(lambda _
(setenv "HOME" "/tmp"))))))
(propagated-inputs
(list python-androguard
(list python-platformdirs
python-androguard
python-apache-libcloud
python-argcomplete
python-asn1crypto
python-clint
python-defusedxml
python-docker
python-gitpython
python-mwclient
python-oscrypto
python-paramiko
python-pillow
python-platformdirs
python-puremagic
python-pyasn1
python-pyasn1-modules
python-pyyaml
python-qrcode
python-requests
+38 -479
View File
@@ -284,7 +284,7 @@ a wide set of telescopes.")
(define-public astroterm
(package
(name "astroterm")
(version "1.2.0")
(version "1.0.10")
(source
(origin
(method git-fetch)
@@ -293,7 +293,7 @@ a wide set of telescopes.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "1p6rxv18gp989fmydbp75mrqxffjlqwp6xkdk18jj322hri0lidv"))))
(base32 "1k946b5qv6jqiap3pi4gv2w46lq0j9q19lfrzkzlypi8h2a9plng"))))
(build-system meson-build-system)
(arguments
(list
@@ -770,7 +770,7 @@ analysis.")
(define-public cpl
(package
(name "cpl")
(version "7.3.4")
(version "7.3.2")
(source
(origin
(method url-fetch)
@@ -778,7 +778,7 @@ analysis.")
"https://ftp.eso.org/pub/dfs/pipelines/libraries/cpl/cpl-"
version ".tar.gz"))
(sha256
(base32 "090xp9scg34z60iiklf8w7gmbjbja3sdv7xk97pn8llklvks8xgi"))))
(base32 "083ppsa6ifc52m0s4ww4l9cajnh2f0y3s5bxaq31drihhrd2c355"))))
(build-system gnu-build-system)
(arguments
;; pycpl expects to find a lib/esopipes-plugins directory. This is
@@ -1215,7 +1215,7 @@ programs for the manipulation and analysis of astronomical data.")
(define-public gpredict
(package
(name "gpredict")
(version "2.5.1")
(version "2.4")
(source
(origin
(method git-fetch)
@@ -1224,7 +1224,7 @@ programs for the manipulation and analysis of astronomical data.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "1bcy50g1hkdwdadr5lb2fs3ry261qcp10kf3cc0kif9y8im91zwl"))))
(base32 "0dfwb6h7bkhx782pj78xw4c1h1r6kd3md7xjz1jvxapsx0iypclw"))))
(build-system gnu-build-system)
(arguments
(list
@@ -1409,7 +1409,7 @@ floating-point (no compression, LZW- or ZIP-compressed), FITS 8-bit, 16-bit,
(define-public indi
(package
(name "indi")
(version "2.2.0")
(version "2.1.9")
(source
(origin
(method git-fetch)
@@ -1418,7 +1418,7 @@ floating-point (no compression, LZW- or ZIP-compressed), FITS 8-bit, 16-bit,
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "0rknhrv7hhwmgvsi9lgrajl6hipsxk7d7nqazk7i8cczsrxgwdjx"))))
(base32 "0nlvcp4z2wb0yha141x25xgvcl5rsqm7jq47c49rxq0bb3arjyig"))))
(build-system cmake-build-system)
(arguments
(list
@@ -2031,32 +2031,29 @@ model-fitting photometry or morphological analyses.")
(define-public python-aiapy
(package
(name "python-aiapy")
(version "0.12.0")
(version "0.11.0")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/LM-SAL/aiapy")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(method url-fetch)
(uri (pypi-uri "aiapy" version))
(sha256
(base32 "0b5zvqnjxpdx8830s2f5pziyjqh8isy4y4b7j0xg5rh4vm7zqfhm"))))
(base32 "11hjqk8840y7dwny0r8apqf0a0kb0lyn7kr1syzqhp87zjslna5q"))))
(build-system pyproject-build-system)
(arguments
(list
;; tests: 47 passed, 82 skipped, 133 warnings
;; tests: 47 passed, 76 skipped
#:test-flags
;; Remove data is required: ValueError: Did not find any files
;; at https:/github.com/sunpy/data/blob/main/aiapy/aia_lev1_\
;; 193a_2013_03_15t12_01_06_84z_image_lev1.fits?raw=true
#~(list (string-append "--deselect=aiapy/calibrate/tests/test_meta.py"
"::test_fix_pointing_missing_value"))
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'include-package-data
(lambda _
;; See: <https://github.com/LM-SAL/aiapy/pull/396>.
(substitute* "pyproject.toml"
(("include-package-data = true.*" all)
(string-append all
"\n[tool.setuptools.package-data]
aiapy = ['*.rst']")))))
(add-before 'check 'set-HOME
(add-before 'check 'set-home
(lambda _
;; E PermissionError: [Errno 13] Permission denied:
;; '/homeless-shelter'
(setenv "HOME" "/tmp"))))))
(native-inputs
(list nss-certs-for-test
@@ -3772,45 +3769,6 @@ processing of CCD images built on a framework to provide error propagation and
bad pixel tracking throughout the reduction process.")
(license license:bsd-3)))
(define-public python-cdasws
(package
(name "python-cdasws")
(version "1.8.15")
(source
(origin
(method url-fetch)
(uri (pypi-uri "cdasws" version))
(sha256
(base32 "04jfzbdpyrfzdz6x2xxcgnpv5bih58bnw0mvscbzklwhq9wsd0gk"))))
(build-system pyproject-build-system)
(arguments
(list #:tests? #f)) ;require network, and missing "context" module
(native-inputs
(list python-setuptools))
(propagated-inputs
(list python-dateutil
python-requests
python-urllib3))
(home-page "https://cdaweb.gsfc.nasa.gov/WebServices/REST/")
(synopsis
"NASA's Coordinated Data Analysis System Web Service Client Library")
(description
"This package provides NASA's Coordinated Data Analysis System Web
Service Client Library.
The Coordinated Data Analysis System (CDAS) supports simultaneous
multi-mission, multi-instrument selection and comparison of science data among
a wide range of current space missions. While CDAWeb provides access to this
data through an HTML-based user interface, these Web services provides a (Web)
application programmming interface (API) to CDAS. If you are not a software
developer and simply want to use the existing web (HTML) interface to CDAS,
then return to the main CDAWeb page. If you are developing software that
requires science data from any of the CDAWeb datasets, then the CDAS Web
services will provide access to the data without having to explicitly
find,download, and read the data files.")
;; NASA open source agreement version 1.3, BSD like.
(license license:bsd-3)))
(define-public python-cdflib
(package
(name "python-cdflib")
@@ -5074,42 +5032,6 @@ CFITSIO library. Among other things, it can
@end itemize")
(license license:gpl2+)))
(define-public python-flatstar
(package
(name "python-flatstar")
(version "0.2.1-alpha")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/ladsantos/flatstar")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "0r6w8sz7z9ri9plqn98dz93c9rb33ky544y1wzwifh1m8y3m67si"))))
(build-system pyproject-build-system)
(arguments
(list
#:test-flags
;; assert np.float32(2.861023e-06) < 1e-06
#~(list "--deselect=tests/test_draw.py::test_supersampling"
;; assert np.float32(1.9073486e-06) < 1e-06
"--deselect=tests/test_draw.py::test_upscaling")))
(native-inputs
(list python-pytest
python-setuptools))
(propagated-inputs
(list python-numpy
python-pillow))
(home-page "https://github.com/ladsantos/flatstar")
(synopsis "Make 2d intensity maps of limb-darkened stars")
(description
"@code{flatstar} is a pure-Python tool for drawing stellar disks with
scientifically-rigorous limb darkening. Each pixel has an accurate fractional
intensity in relation to the total stellar intensity of @code{1.0}. It is
ideal for ray-tracing simulations of stars and planetary transits.")
(license license:expat)))
(define-public python-galsim
(package
(name "python-galsim")
@@ -5781,41 +5703,6 @@ universes of galaxies starting from a catalog of dark matter halos obtained
from a cosmological simulation.")
(license license:bsd-3)))
(define-public python-hapiclient
(package
(name "python-hapiclient")
(version "0.2.5")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/hapi-server/client-python")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "0mjb12cphcqq3vj3czyx77yrd3jl15gz6a2a2q5fcz21i63fpig6"))))
(build-system pyproject-build-system)
(arguments
(list
;; Tests require access to:
;; http://hapi-server.org/servers/TestData/xhapi
;; http://hapi-server.org/servers/TestData2.0/hapi
#:tests? #f))
(native-inputs
(list python-setuptools))
(propagated-inputs
(list python-isodate
python-joblib
python-numpy
python-pandas
python-urllib3))
(home-page "https://github.com/hapi-server/client-python")
(synopsis "Interface to Heliophysics data server API")
(description
"This package provides an interface to @acronym{Heliophysics Application
Programmers Interface, HAPI} data server API.")
(license license:bsd-3)))
(define-public python-hasasia
(package
(name "python-hasasia")
@@ -6590,47 +6477,6 @@ quantification of galaxies, quasar-host galaxy decomposition and much more.")
(native-inputs
(list python-setuptools))))
(define-public python-lephare
(package
(name "python-lephare")
(version "0.3.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "lephare" version))
(sha256
(base32 "1nkd807kl2xg25iwb5wj380pxlvrd9abdaznaw5if3qjmjkjx86s"))))
(build-system pyproject-build-system)
(arguments
(list
#:test-flags
;; Network access is required to reach <http://svo2.cab.inta-csic.es>.
#~(list "--deselect=tests/lephare/test_data_retrieval.py::test_get_auxiliary_data"
"--deselect=tests/lephare/test_filter.py::test_filtersvc")
#:phases
'(modify-phases %standard-phases
(add-before 'sanity-check 'set-HOME
(lambda _ (setenv "HOME" "/tmp"))))))
(native-inputs
(list cmake-minimal
python-pytest
python-setuptools))
(propagated-inputs
(list python-astropy
python-matplotlib
python-numpy
python-platformdirs
python-pooch
python-requests
python-scipy
python-wurlitzer))
(home-page "https://lephare.readthedocs.io/en/latest/")
(synopsis "Photometric redshift estimator")
(description
"LePHARE is a code for estimating galaxy redshifts and physical parameters
using template fitting.")
(license license:expat)))
(define-public python-libstempo
(package
(name "python-libstempo")
@@ -6846,37 +6692,6 @@ restrictive than the API used by astropy, so the appropriate module to use
will depend on your needs.")
(license license:expat)))
(define-public python-madrigalweb
(package
(name "python-madrigalweb")
(version "3.3.7")
(source
(origin
(method url-fetch)
(uri (pypi-uri "madrigalweb" version))
(sha256
(base32 "0p55igi0xrckjbihcbjn14033hzliq6qjmacrxigrvjw3m016b75"))))
(build-system pyproject-build-system)
(arguments
(list #:tests? #f)) ;network access is required
(native-inputs
(list python-setuptools))
(home-page "https://cedar.openmadrigal.org")
(synopsis "Python Madrigal Remote API")
(description
"@code{madrigalWeb} is a pure python module to access data from any
@url{https://cedar.openmadrigal.org/, Madrigal}
database.
Madrigal is an upper atmospheric science database used by groups throughout
the world. Madrigal is a robust, World Wide Web based system capable of
managing and serving archival and real-time data, in a variety of formats,
from a wide range of upper atmospheric science instruments. Data at each
Madrigal site is locally controlled and can be updated at any time, but shared
metadata between Madrigal sites allow searching of all Madrigal sites at once
from any Madrigal site.")
(license license:expat)))
(define-public python-mapsims
(package
(name "python-mapsims")
@@ -7155,44 +6970,6 @@ Astronomy.")
"Orbital is a high level orbital mechanics package for Python.")
(license license:expat)))
(define-public python-p-winds
(package
(name "python-p-winds")
(version "1.4.7")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/ladsantos/p-winds")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "0z94nvx47v50c7nq20kny49cr2w2xszvijy9bfxp2dbgq49ip244"))))
(build-system pyproject-build-system)
(arguments
(list #:tests? #f)) ;network access is required to fetch test data
(native-inputs
(list python-setuptools))
(propagated-inputs
(list python-astropy
python-flatstar
python-numpy
python-scipy))
(home-page "https://github.com/ladsantos/p-winds")
(synopsis "Parker wind models for planetary atmospheres")
(description
"Python implementation of Parker wind models for planetary atmospheres.
@code{p-winds} produces simplified, 1-D models of the upper atmosphere of a
planet, and perform radiative transfer to calculate observable spectral
signatures.
The scalable implementation of 1D models allows for atmospheric retrievals to
calculate atmospheric escape rates and temperatures. In addition, the modular
implementation allows for a smooth plugging-in of more complex descriptions to
forward model their corresponding spectral signatures (e.g., self-consistent
or 3D models).")
(license license:expat)))
(define-public python-petrofit
(package
(name "python-petrofit")
@@ -8236,114 +8013,6 @@ data. Pysat's plug-in design allows analysis support for any data, including
user provided data sets.")
(license license:bsd-3)))
(define-public python-pysatmadrigal
(package
(name "python-pysatmadrigal")
(version "0.2.0")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/pysat/pysatMadrigal")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "1x1sbx9xv9h1p85cryn2b9kbnxy0kb9xzfgxcvfrpfxa5ji4qwcp"))))
(build-system pyproject-build-system)
(arguments
(list
#:test-flags
;; ValueError: unable to open url http://cedar.openmadrigal.org
#~(list "-k" "not test_download and not test_remote_file_list")
#:phases
#~(modify-phases %standard-phases
(add-before 'sanity-check 'set-HOME
(lambda _
(setenv "HOME" "/tmp")))
(add-before 'check 'pre-check
(lambda _
(mkdir "pysatData")
(invoke "python" "-c"
"import pysat; pysat.params['data_dirs'] = 'pysatData'"))))))
(native-inputs
(list python-pytest
python-pytest-cov ;remove after pyton-team is merged
python-setuptools))
(propagated-inputs
(list python-h5py
python-madrigalweb
python-numpy
python-packaging
python-pandas
python-pysat
python-xarray))
(home-page "https://github.com/pysat/pysatMadrigal")
(synopsis "Madrigal instrument support for the pysat ecosystem")
(description
"This package provides functions to import data from the
@url{https://cedar.openmadrigal.org/, Madrigal} database (upper atmospheric
science database) into pysat.")
(license license:bsd-3)))
(define-public python-pysatspaceweather
(package
(name "python-pysatspaceweather")
(version "0.2.2")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/pysat/pysatSpaceWeather")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "0gd6vzy2ikgkrff94qg52pysf1vp7h1p12p8in9j6f6n3cs1b0z2"))))
(build-system pyproject-build-system)
(arguments
(list
;; tests: 352 passed, 561 skipped, 61 deselected, 2510 warnings
#:test-flags
#~(list "-m" "not remote_data"
;; Network access is required.
"-k" (string-join
(list "not test_download"
"test_historic_ace_no_data"
"test_historic_download_past_limit"
"test_missing_kp_file"
"test_missing_prelim_file"
"test_realtime_ace_bad_day"
;; KeyError: 'f107'
"test_45day_forecast_data_length")
" and not "))
#:phases
#~(modify-phases %standard-phases
(add-before 'sanity-check 'set-HOME
(lambda _
(setenv "HOME" "/tmp")))
(add-before 'check 'pre-check
(lambda _
(mkdir "pysatData")
(invoke "python" "-c"
"import pysat; pysat.params['data_dirs'] = 'pysatData'"))))))
(native-inputs
(list python-pytest
python-setuptools))
(propagated-inputs
(list python-netcdf4
python-numpy
python-packaging
python-pandas
python-pysat
python-requests
python-xarray))
(home-page "https://github.com/pysat/pysatSpaceWeather")
(synopsis "Pysat support for Space Weather Indices")
(description
"This package provides pysatSpaceWeather - a Python module, which
contains routines to load common historic, real-time, and forecasted space
weather indices as pysat.Instrument objects.")
(license license:bsd-3)))
(define-public python-pysiaf
(package
(name "python-pysiaf")
@@ -8519,59 +8188,6 @@ experiments. It is a large refactor of
memory usage, improving performance and run in parallel with MPI.")
(license license:bsd-3)))
(define-public python-pyspedas
(package
(name "python-pyspedas")
(version "2.1.0")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/spedas/pyspedas")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "12fdqf45rxwcsy72vbfwrzmd03zlcan62bawq966rcmqs1riwqwn"))))
(build-system pyproject-build-system)
(arguments
(list
;; XXX: Netowrk access is required and set up of geopack.
#:tests? #f
#:phases
#~(modify-phases %standard-phases
(add-before 'sanity-check 'set-HOME
(lambda _
(setenv "HOME" "/tmp"))))))
(native-inputs
(list python-pytest
python-setuptools))
(propagated-inputs
(list python-aioboto3
python-astropy
python-cdasws
python-cdflib
python-fsspec
python-geopack
python-hapiclient
python-matplotlib
python-netcdf4
python-numpy
python-pandas
python-pywavelets
python-requests
python-s3fs
python-scipy
python-setuptools
python-spacepy
python-xarray))
(home-page "https://spedas.org")
(synopsis "Python Space Physics Environment Data Analysis Software")
(description
"The Python-based Space Physics Environment Data Analysis Software
(PySPEDAS) framework supports multi-mission, multi-instrument retrieval,
analysis, and visualization of heliophysics time series data.")
(license license:expat)))
(define-public python-pysynphot
;; XXX: 2.0.0 was released in 2021 there are a lot of changes since that
;; time and it failed to build with python-astropy 6.0.0, use the latest
@@ -9786,67 +9402,6 @@ Computing Cluster, HPCC}
@end itemize")
(license license:bsd-3)))
(define-public python-spacepy
(package
(name "python-spacepy")
(version "0.7.0")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/spacepy/spacepy")
(commit (string-append "release-" version))))
(file-name (git-file-name name version))
(sha256
(base32 "1i9657j4qll3f8z20n9md93yh35n0vjj32k522bdqxq5pda8dng0"))))
(build-system pyproject-build-system)
(arguments
(list
;; tests:
#:test-flags
#~(list "--ignore=developer/"
;; Tests depend on https://cdf.gsfc.nasa.gov/.
"--ignore=tests/test_all.py"
"--ignore=tests/test_coordinates.py"
"--ignore=tests/test_datamodel.py"
"--ignore=tests/test_irbempy.py"
"--ignore=tests/test_pycdf.py"
"--ignore=tests/test_pycdf_istp.py"
"--ignore=tests/test_time.py"
;; AssertionError: Lists differ: ['[sp[38 chars]cePy UNRELEASED
;; default test entry: value\n', [38 chars]]\n'] != ['[sp[38
;; chars]cePy 0.7.0 default test entry: value\n', '#tes[33
;; chars]]\n']
(string-append "--deselect=tests/test_base.py::"
"SpacepyConfigTests::"
"testWriteDefaultsMultipleSections"))
#:phases
#~(modify-phases %standard-phases
(add-before 'sanity-check 'set-HOME
(lambda _
(setenv "HOME" "/tmp")))
(add-before 'check 'remove-local-source
(lambda _
(delete-file-recursively "spacepy"))))))
(native-inputs
(list gfortran
python-pytest
python-setuptools))
(propagated-inputs
(list python-astropy
python-h5py
python-matplotlib
python-numpy
python-dateutil
python-scipy))
(home-page "https://github.com/spacepy/spacepy")
(synopsis "Tools for Space Science Applications")
(description
"SpacePy is a package for Python, targeted at the space sciences, that
aims to make basic data analysis, modeling and visualization easier. It
builds on the capabilities of NumPy and MatPlotLib packages.")
(license license:psfl)))
(define-public python-spacetrack
(package
(name "python-spacetrack")
@@ -12120,7 +11675,7 @@ deconvolution). Such post-processing is not performed by Stackistry.")
(define-public stellarium
(package
(name "stellarium")
(version "26.1")
(version "25.4")
(source
(origin
(method git-fetch)
@@ -12129,12 +11684,16 @@ deconvolution). Such post-processing is not performed by Stackistry.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "05c36v2cyvxdvh4wyapdgc642khnldnbpzad76ql738894ga5djk"))))
(base32 "085ip706z3jsjgyp114h9x8sl7g947mrfrhgckrk86fmajwia3hc"))))
(build-system qt-build-system)
;; TODO: Complete documentation build and split into dedicated outputs.
(arguments
(list
;; FIXME: Tests keep failing on 100% when preparing test-suit for INDI.
#:tests? #f
#:configure-flags
#~(list "-DENABLE_TESTING=ON"
#~(list "-DENABLE_GPS=1"
"-DENABLE_TESTING=0"
(string-append "-DCMAKE_CXX_FLAGS=-isystem "
#$(this-package-input "qtpositioning") "/include/qt6"
" -isystem "
@@ -12161,7 +11720,6 @@ deconvolution). Such post-processing is not performed by Stackistry.")
qtmultimedia
qtpositioning
qtserialport
qtsvg
qttranslations
qtwayland
qtwebengine
@@ -12176,11 +11734,12 @@ deconvolution). Such post-processing is not performed by Stackistry.")
python-wrapper
qttools))
(home-page "https://stellarium.org/")
(synopsis "Planetarium and 3D sky viewer")
(synopsis "3D sky viewer")
(description
"Stellarium shows a realistic sky in 3D, just like what you see with the
naked eye, binoculars, or a telescope. It can be used to control telescopes
over a serial port for tracking celestial objects.")
"Stellarium is a planetarium. It shows a realistic sky in
3D, just like what you see with the naked eye, binoculars, or a telescope. It
can be used to control telescopes over a serial port for tracking celestial
objects.")
(license license:gpl2+)))
(define-public stiff
@@ -12488,7 +12047,7 @@ See related paper
(define-public tenmon
(package
(name "tenmon")
(version "20260412")
(version "20260217")
(source
(origin
(method git-fetch)
@@ -12497,7 +12056,7 @@ See related paper
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32 "0ba7hnkskmr2rydy9rvf3c5cs401bv80qhs32sw5r43kdlpvlaxx"))))
(base32 "07hiqr6jxmbw2dasbmyvcjmfxw4hjsn7xp269irjgfijsf8ga68n"))))
(build-system qt-build-system)
(arguments
(list
@@ -12707,7 +12266,7 @@ traveling to a star 100 light years away looks like.")
(define-public wcslib
(package
(name "wcslib")
(version "8.6")
(version "8.5")
(source
(origin
(method url-fetch)
@@ -12715,7 +12274,7 @@ traveling to a star 100 light years away looks like.")
"wcslib-releases/"
"wcslib-" version ".tar.bz2"))
(sha256
(base32 "0nndcz82qvfx3hhhw0bylyrydnc23a8bqhp71w4yz6d10lv44c70"))
(base32 "1kpacbh6zrci44qab0jllkn3a9z3b465w17qcfivvfpxzdw1pzgi"))
(snippet
#~(begin (use-modules (guix build utils))
(delete-file-recursively "C/flexed")))))
File diff suppressed because it is too large Load Diff
+10 -8
View File
@@ -913,7 +913,7 @@ suite native in R.")
(define-public r-bpcells
(package
(name "r-bpcells")
(version "0.3.0")
(version "0.3.1")
(source
(origin
(method git-fetch)
@@ -922,7 +922,7 @@ suite native in R.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "12h1di45fg06nhsliii7v0h1z567pkpis1xm4ar1qr8ns1n8iljw"))
(base32 "0yqgcajq83g25mznwcngaw7pi6vcqxqdnynpgb95yci57k3wrp6j"))
(modules '((guix build utils)))
(snippet
'(delete-file-recursively "r/src/vendor/highway"))))
@@ -931,13 +931,15 @@ suite native in R.")
(arguments
(list
#:phases
'(modify-phases %standard-phases
`(modify-phases %standard-phases
(add-after 'unpack 'chdir
(lambda _
(substitute* "r/configure"
(("tools/hwy-test.cpp" m)
(string-append m " $HWY_LIBS $HWY_CFLAGS")))
(chdir "r"))))))
(lambda _ (chdir "r")))
,@(if (target-x86-32?)
'((add-after 'chdir 'require-sse2
;; This avoids falling back to the scalar backend in
;; highway, which fails to build.
(lambda _ (setenv "CFLAGS" "-msse2"))))
'()))))
(propagated-inputs
(list r-dplyr
r-ggplot2
+625 -101
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File diff suppressed because it is too large Load Diff
+2 -2
View File
@@ -2730,7 +2730,7 @@ dynamics is used by FreeCAD 1.0.0 for its new Assembly workbench.")
(define-public freecad
(package
(name "freecad")
(version "1.1.0")
(version "1.1.1")
(source
(origin
(method git-fetch)
@@ -2740,7 +2740,7 @@ dynamics is used by FreeCAD 1.0.0 for its new Assembly workbench.")
(recursive? #t))) ;needed for the AddonManager
(file-name (git-file-name name version))
(sha256
(base32 "029ndw1dypx0xhs4fyiinf7gpk8am0vm9b24idvdsx9x7ghrqz4j"))
(base32 "05dx7ifx33705mxb0vc82j0mzzkazakgadfgq5bws30qrxp49xgg"))
(snippet
#~(begin
(use-modules (guix build utils))
+5
View File
@@ -148,6 +148,11 @@ client.")
(list (search-path-specification
(variable "FCITX_ADDON_DIRS")
(files '("lib/fcitx5")))
(search-path-specification
(variable "GUIX_GTK2_IM_MODULE_FILE")
(file-type 'regular)
(separator #f)
(files '("lib/gtk-2.0/2.10.0/immodules-gtk2.cache")))
(search-path-specification
(variable "GUIX_GTK3_IM_MODULE_FILE")
(file-type 'regular)
+3 -3
View File
@@ -13508,8 +13508,8 @@ rules to solve permissions issues.")
(define-public steam-devices-udev-rules
;; Last release from 2019-04-10
(let ((commit "13443480a64fe8f10676606bd57da6de89f8ccb1")
(revision "1"))
(let ((commit "7dde9ecb3c386363ecd9bd0a3b77e4756d200704")
(revision "2"))
(package
(name "steam-devices-udev-rules")
(version (git-version "1.0.0.61" revision commit))
@@ -13521,7 +13521,7 @@ rules to solve permissions issues.")
(file-name (git-file-name name version))
(sha256
(base32
"0i086gmnk93q76sw1laa9br6b7zj2r6nrrw7d64y4q9wcrlxw2bi"))))
"0w0xkgi9fpvdbpl57f8fy2nwy2icm6iag39b8ifpkijlxgclx1p3"))))
(build-system copy-build-system)
(arguments
'(#:install-plan '(("./" "lib/udev/rules.d"
+79 -17
View File
@@ -425,14 +425,29 @@ hierarchical hexagonal geospatial indexing system")
(base32
"00qdk9a4048pzfj2rhzkfw3lvm642znf6kr4x29i3d94494pxsnn"))))
(build-system cmake-build-system)
(arguments `(#:phases
(modify-phases %standard-phases
(add-after
'unpack 'patch-test-shebangs
(lambda _
(substitute* '("tests/xmltester/testrunner.sh"
"tests/xmltester/safe_to_xml.sh")
(("/bin/sh") (which "sh"))))))))
(arguments
`(#:phases
(modify-phases %standard-phases
,@(if (or (target-x86-32?) (target-arm32?))
'((add-after 'unpack 'disable-broken-tests
(lambda _
;; This test fails due to limited accuracy.
(delete-file "tests/xmltester/tests/general/TestCentroid.xml")
(with-directory-excursion "tests/unit"
;; These also fail due to limited accuracy.
(delete-file "algorithm/MinimumAreaRectangleTest.cpp")
(delete-file "capi/GEOSMinimumRotatedRectangleTest.cpp")
;; It is unclear why these fail, but I'm guessing:
;; limited accuracy.
(delete-file "linearref/LengthIndexedLineTest.cpp")
(delete-file "math/DDTest.cpp")))))
'())
(add-after
'unpack 'patch-test-shebangs
(lambda _
(substitute* '("tests/xmltester/testrunner.sh"
"tests/xmltester/safe_to_xml.sh")
(("/bin/sh") (which "sh"))))))))
(inputs
(list glib))
(home-page "https://libgeos.org/")
@@ -955,6 +970,29 @@ hydrology and waste deposition.")
(base32
"03r6mspfv22fs4x4jcgv25v9gsj5k6zy8incvyf94qf50g47s2bc"))))
(build-system cmake-build-system)
(arguments
(if (target-32bit?)
(list
#:phases
'(modify-phases %standard-phases
(add-after 'unpack 'patch-tests
(lambda _
;; These regression tests fail due to accuracy problems.
(substitute* "test/unit/test_factory.cpp"
(("^TEST\\(factory, AuthorityFactory_createUnitOfMeasure_linear_us_survey_foot\\) \\{" m)
(string-append m "\nGTEST_SKIP();\n")))
(substitute* "test/unit/test_grids.cpp"
(("^TEST_F\\(GridTest, VerticalShiftGridSet_gtx\\) \\{" m)
(string-append m "\nGTEST_SKIP();\n")))
(substitute* "test/unit/test_defmodel.cpp"
(("^TEST\\(defmodel, evaluator_horizontal_unit_metre\\) \\{" m)
(string-append m "\nGTEST_SKIP();\n")))
;; These regression tests fail due to accuracy problems.
(substitute* "test/CMakeLists.txt"
(("proj_add_gie_test\\(\"4D-API-cs2cs-style\".+") "")
(("proj_add_gie_test\\(\"Builtins\".+") "")
(("proj_add_gie_test\\(\"peirce_q\".+") ""))))))
'()))
(native-inputs (list googletest pkg-config))
(propagated-inputs (list curl libtiff sqlite)) ;required by proj.pc
(home-page "https://proj.org/")
@@ -984,7 +1022,34 @@ lets developers use the functionality of Proj in their own software.")
version ".tar.gz"))
(sha256
(base32
"1g0hkpiablvhsmw0kn5frwgdir3q7avc45p6lc1zhhhzkv5ikydh"))))))
"1g0hkpiablvhsmw0kn5frwgdir3q7avc45p6lc1zhhhzkv5ikydh"))))
(arguments
(if (target-32bit?)
(list
#:phases
'(modify-phases %standard-phases
(add-after 'unpack 'patch-tests
(lambda _
;; These regression tests fail due to accuracy problems.
(substitute* "test/unit/test_factory.cpp"
(("^TEST\\(factory, AuthorityFactory_createUnitOfMeasure_linear_us_survey_foot\\) \\{" m)
(string-append m "\nGTEST_SKIP();\n")))
(substitute* "test/unit/test_grids.cpp"
(("^TEST_F\\(GridTest, VerticalShiftGridSet_gtx\\) \\{" m)
(string-append m "\nGTEST_SKIP();\n")))
(substitute* "test/unit/test_defmodel.cpp"
(("^TEST\\(defmodel, evaluator_horizontal_unit_metre\\) \\{" m)
(string-append m "\nGTEST_SKIP();\n")))
;; These regression tests fail due to accuracy problems.
(substitute* "test/CMakeLists.txt"
(("proj_add_gie_test\\(\"4D-API-cs2cs-style\".+") "")
(("proj_add_gie_test\\(\"Builtins\".+") "")
(("proj_add_gie_test\\(\"peirce_q\".+") "")
(("proj_add_gie_test\\(\"adams_ws2\".+") ""))
(substitute* "test/cli/CMakeLists.txt"
(("proj_add_test_script_sh\\(\"testvarious\" CS2CS_BIN\\)") ""))))))
'()))))
(define-public python-obspy
(package
@@ -1219,23 +1284,20 @@ readily with other Python GIS packages such as pyproj, Rtree, and Shapely.")
(define-public python-geopack
(package
(name "python-geopack")
(version "1.0.12")
(version "1.0.10")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/tsssss/geopack")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(method url-fetch)
(uri (pypi-uri "geopack" version))
(sha256
(base32 "0ap5j4359xxjkbz06y097yq5d37sxcwlnlsfwrv6dvza7ydmgcgg"))))
(base32 "0mryjp7m4h99qlpvnn40s81sygr73qcv8rkmjp9pcli1gz829kjf"))))
(build-system pyproject-build-system)
(arguments
(list
;; XXX Reported upstream <https://github.com/tsssss/geopack/issues/21>.
#:tests? #f))
(native-inputs
(list python-setuptools))
(list python-pytest python-setuptools python-wheel))
(propagated-inputs
(list python-numpy python-scipy))
(home-page "https://github.com/tsssss/geopack")
+13 -1
View File
@@ -1,5 +1,5 @@
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2014, 2015, 2016, 2017, 2018, 2019, 2021 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2014-2019, 2021, 2026 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2021, 2026 Ludovic Courtès <ludo@gnu.org>
;;; Copyright © 2017 Leo Famulari <leo@famulari.name>
;;; Copyright © 2017, 2022 Marius Bakke <marius@gnu.org>
@@ -226,6 +226,18 @@ JNI.")
(setenv "JAVACMD" (search-input-file inputs "/bin/jamvm"))
(setenv "JAVAC" (search-input-file inputs "/bin/jikes"))
(setenv "CLASSPATH" (search-input-file inputs "/lib/rt.jar"))))
,@(if (target-x86-32?)
;; XXX: On i686 isFile() always seems to return true. Patching
;; this here is very ugly, but the effects are limited. None
;; of these changes remain by the time we've built Icedtea and
;; the other JDKs.
'((add-after 'unpack 'disable-isFile-checks
(lambda _
(substitute* "src/main/org/apache/tools/ant/util/ResourceUtils.java"
(("destFile = \\(\\(FileProvider\\).*") ""))
(substitute* "src/main/org/apache/tools/ant/taskdefs/Mkdir.java"
(("dir.isFile\\(\\)") "false")))))
'())
(replace 'build
(lambda* (#:key inputs outputs #:allow-other-keys)
;; Ant complains if this file doesn't exist.
+2 -1
View File
@@ -33,6 +33,7 @@
#:use-module (gnu packages libusb)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages python)
#:use-module (gnu packages python-build)
#:use-module (gnu packages swig)
#:use-module (gnu packages textutils))
@@ -95,7 +96,7 @@
"/html"))))))
#:tests? #f)) ; tests fail without access to USB
(native-inputs
(list doxygen graphviz pkg-config python swig-4.0))
(list doxygen graphviz pkg-config python python-setuptools swig))
(inputs
(list boost libconfuse))
(propagated-inputs
+12 -40
View File
@@ -2475,6 +2475,9 @@ similar to MATLAB, GNU Octave or SciPy.")
;; "--enable-doxygen"
"--enable-dot"
"--enable-netcdf-4"
#$@(if (or (target-x86-32?) (target-arm32?))
'("CFLAGS=-Wno-error=incompatible-pointer-types")
'())
(string-append "--with-plugin-dir=" #$output "/lib/hdf5-plugins"))
#:phases
#~(modify-phases %standard-phases
@@ -2486,7 +2489,15 @@ similar to MATLAB, GNU Octave or SciPy.")
(("testurl.sh") ""))
(substitute* "nczarr_test/Makefile.in"
(("/bin/bash")
(search-input-file inputs "bin/bash")))))
(search-input-file inputs "bin/bash")))
;; This test fails on 32 bit platforms.
#$@(if (or (target-x86-32?) (target-arm32?))
'((substitute* '("ncdump/tst_netcdf4_4.sh"
"ncdump/tst_nccopy4.sh")
(("#!/bin/sh" m) (string-append m "\nexit 0\n")))
(substitute* "ncdump/Makefile.in"
(("tst_netcdf4_4.log") "")))
'())))
(add-before 'configure 'fix-source-date
(lambda _
;; As we ${SOURCE_DATE_EPOCH} evaluates to "1" in the build
@@ -3995,45 +4006,6 @@ addition it can be used as a module in Python for plotting. It supports
vector and bitmap output, including PDF, Postscript, SVG and EMF.")
(license license:gpl2+)))
(define-public voro++
(package
(name "voro++")
(version "0.4.6")
(source
(origin
(method url-fetch)
(uri (string-append "https://math.lbl.gov/" name "/download/dir/"
name "-" version ".tar.gz"))
(sha256
(base32 "0zj3xbrqf8sm49yhypy23k3w9786r94kcwm8v803ikp23q3p0ygg"))))
(build-system gnu-build-system)
(arguments
(list
#:tests? #f ;no tests
#:make-flags #~(list (string-append "PREFIX=" #$output))
#:phases
#~(modify-phases %standard-phases
(delete 'configure)))) ;no configure
(home-page "https://math.lbl.gov/voro++/")
(synopsis "C++ library for the computation of the Voronoi diagram")
(description
"Voro++ is a software library for carrying out three-dimensional
computations of the Voronoi tessellation. A distinguishing feature of the
Voro++ library is that it carries out cell-based calculations, computing the
Voronoi cell for each particle individually. It is particularly well-suited
for applications that rely on cell-based statistics, where features of Voronoi
cells (eg. volume, centroid, number of faces) can be used to analyze a system
of particles.
Voro++ comprises of several C++ classes that can be built as a static library.
A command-line utility is also provided that can use most features of the
code. The direct cell-by-cell construction makes the library particularly
well-suited to handling special boundary conditions and walls. It employs
algorithms that are tolerant for numerical precision errors, it exhibits high
performance, and it has been successfully employed on very large particle
systems.")
(license license:bsd-3)))
(define-public maxflow
(package
(name "maxflow")
+2 -42
View File
@@ -167,46 +167,6 @@
#:use-module (guix utils)
#:use-module (srfi srfi-1))
(define-public python-aioboto3
(package
(name "python-aioboto3")
(version "15.5.0")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/terricain/aioboto3")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "05644x17f9sl8mv9bp8l0rjcmw5x2ssyd5z1v3xmgcspk5qs6qn8"))))
(build-system pyproject-build-system)
(arguments
(list
#:tests? #f ;XXX: all tests faild
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'relax-requirements
(lambda _
(substitute* "pyproject.toml"
(("aiobotocore\\[boto3\\]==2.25.1")
"aiobotocore >= 2.25.1")))))))
(native-inputs
(list python-setuptools
python-setuptools-scm))
(propagated-inputs
(list python-aiobotocore
python-aiofiles
;; [optional]
python-boto3
python-cryptography))
(home-page "https://github.com/terricain/aioboto3")
(synopsis "Async boto3 wrapper")
(description
"This package is mostly just a wrapper combining the great work of boto3
and aiobotocore.")
(license license:asl2.0)))
(define-public python-aiocoap
(package
(name "python-aiocoap")
@@ -7923,7 +7883,7 @@ basic TCP/IP protocols.")
(define-public python-geventhttpclient
(package
(name "python-geventhttpclient")
(version "2.3.3")
(version "2.3.9")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -7933,7 +7893,7 @@ basic TCP/IP protocols.")
(file-name (git-file-name name version))
(sha256
(base32
"1ya0i0fbx054mfx5d1k75fcf64xzp7vva8lkwwzan41xbnc56nyj"))))
"1diq6n9sr92rsqbpxlbhbn1d22hrlzp6swykz9bfzh7sxpywa6j8"))))
(build-system pyproject-build-system)
(arguments
(list
+11 -6
View File
@@ -23055,16 +23055,21 @@ completes.")
(define-public python-asyncinject
(package
(name "python-asyncinject")
(version "0.6")
(version "0.6.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "asyncinject" version))
(method git-fetch)
(uri (git-reference
(url "https://github.com/simonw/asyncinject")
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32 "0x57idiy19lzyn32klgm06r223z8gr2aqqk91gysbshq7jg8g3pf"))))
(base32 "127ahb32x2qqjk17a667adrvrl63ima8khifq6dfm0q3vlfslxnn"))))
(build-system pyproject-build-system)
(native-inputs (list python-pytest python-pytest-asyncio
python-setuptools python-wheel))
(native-inputs
(list python-pytest
python-pytest-asyncio
python-setuptools))
(home-page "https://github.com/simonw/asyncinject")
(synopsis
"Run async workflows using pytest-fixtures-style dependency injection")