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Author SHA1 Message Date
Ricardo Wurmus
446e86110e
gnu: r-rhdf5: Disable tests. 
* gnu/packages/bioconductor.scm (r-rhdf5)[arguments]: Disable tests.

Change-Id: Idf7000f2471b9bac6c28f86122b78c230a61aa29
 2025-04-16 17:08:42 +02:00
Ricardo Wurmus
982efb8afd
gnu: r-graph: Disable tests. 
* gnu/packages/bioconductor.scm (r-graph)[arguments]: Disable tests.

Change-Id: I9f5d2356d877f01f67bc0ab0e876f6e6c77132f8
 2025-04-16 15:49:35 +02:00
Ricardo Wurmus
3948d03772
gnu: r-coregx: Disable three tests. 
* gnu/packages/bioconductor.scm (r-coregx)[arguments]: Add phase
'disable-bad-tests.

Change-Id: Ic8d9425151250946d81770c328c9ad621a1d4a45
 2025-04-16 11:01:12 +02:00
Ricardo Wurmus
68268f5b93
gnu: Remove r-memes. 
This package cannot be used with a copy of the MEME Suite, which is
distributed under a non-free license.

* gnu/packages/bioconductor.scm (r-memes): Remove variable.

Change-Id: Ia1ffa19b1f70b84b411e37a98a1452b696536f90
 2025-04-16 11:00:57 +02:00
Ricardo Wurmus
9302113694
gnu: bioconductor: Move packages to the correct section. 
* gnu/packages/bioconductor.scm (r-chihaya, r-cpp11bigwig, r-memes,
r-msexperiment): Move these packages to the section for generic packages.

Change-Id: Iba7ae7664c89ee2440b9e51b50926dbcc0898639
 2025-04-16 11:00:57 +02:00
Ricardo Wurmus
b3c14cd7f7
gnu: r-pcaexplorer: Add test input. 
* gnu/packages/bioconductor.scm (r-pcaexplorer)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-markdown.

Change-Id: I558709266a972801e68373469aa5d4141b547971
 2025-04-16 11:00:57 +02:00
Ricardo Wurmus
b274b66dbf
gnu: r-tradeseq: Add test input. 
* gnu/packages/bioconductor.scm (r-tradeseq)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-clusterexperiment.

Change-Id: I21ba6dfd4fae27f6c6877ed64535d024259cd592
 2025-04-16 11:00:57 +02:00
Ricardo Wurmus
3ba03c8484
gnu: r-massspecwavelet: Add test input. 
* gnu/packages/bioconductor.scm (r-massspecwavelet)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-runit.

Change-Id: Ifc439e9baea1a83f6ee4a4d32dd76cb63e63ba08
 2025-04-16 11:00:57 +02:00
Ricardo Wurmus
8a5fd7e5a4
gnu: r-variancepartition: Add test input. 
* gnu/packages/bioconductor.scm (r-variancepartition)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-rfast.

Change-Id: Ie760f6ca655f749399bdaea88f7e622c1f07cfc7
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
fddab1e499
gnu: r-tfbstools: Add test input. 
* gnu/packages/bioconductor.scm (r-tfbstools)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-jaspar2016.

Change-Id: I20a036d04ad4e23efd758408997594227258def5
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
2cd5b86b8c
gnu: r-chippeakanno: Fix tests. 
* gnu/packages/bioconductor.scm (r-chippeakanno)[properties]: Record
updater-extra-native-inputs.
[arguments]: Add phase 'disable-bad-tests.
[native-inputs]: Add r-seqinr.

Change-Id: I82a17cc5cacf693ce109697e5d2c3cbe1937a420
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
92c9fd7cb1
gnu: r-seqarray: Add test input. 
* gnu/packages/bioconductor.scm (r-seqarray)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-digest.

Change-Id: If09c5a6fef540a928b32f0319f06eae8e9a76aeb
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
4137861fff
gnu: r-mosdef: Disable one test. 
* gnu/packages/bioconductor.scm (r-mosdef)[arguments]: Add phase 'disable-bad-tests.

Change-Id: Ie5f715cfedd88154811fded0fb72ed619ae42fe8
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
a8a8996524
gnu: r-ancombc: Add test input. 
* gnu/packages/bioconductor.scm (r-ancombc)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-microbiome.

Change-Id: I11bf5ffdfc4f9c9c92098d41abf4f31354fd0025
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
9e9e3d659b
gnu: r-tcgautils: Disable some tests. 
* gnu/packages/bioconductor.scm (r-tcgautils)[arguments]: Add phase
'disable-bad-tests.

Change-Id: I1a4712e74ed1b02197440fbc70d1219c0d0d2401
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
208ff58bbb
gnu: r-slingshot: Add test input. 
* gnu/packages/bioconductor.scm (r-slingshot)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-delayedmatrixstats.

Change-Id: Iffd910d576eca7279ea48b13d4ec9f287bb66a37
 2025-04-16 11:00:56 +02:00
Ricardo Wurmus
6a92622bdf
gnu: Remove duplicate of r-leidenbase. 
* gnu/packages/bioconductor.scm (r-leidenbase): Remove variable.

Change-Id: Idedbc1b3924996beb92d7c566d811d34911d4416
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
740dd14b33
gnu: r-bgeedb: Disable tests. 
* gnu/packages/bioconductor.scm (r-bgeedb)[arguments]: Disable tests.

Change-Id: I76c3ecfead5ba4547ea137a8c2fc052c1612b796
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
ec84c1c145
gnu: r-fishpond: Add test input. 
* gnu/packages/bioconductor.scm (r-fishpond)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-tximportdata.

Change-Id: Iacd3350a79a3b5234af9f7d4df91b8f10d7fa496
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
612d035a42
gnu: r-diffbind: Add test inputs. 
* gnu/packages/bioconductor.scm (r-diffbind)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-csaw and r-edger.

Change-Id: I4bd705dcf39eafdad0d169ea8d8d15f872ff682c
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
7ad183fb85
gnu: r-cummerbund: Correct indentation. 
* gnu/packages/bioconductor.scm (r-cummerbund): Correctly indent the expression.

Change-Id: I7cb31f8172c8977b9d2afd31cc9d68db3e5a91f7
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
ee67d29e01
gnu: r-bionero: Add test input. 
* gnu/packages/bioconductor.scm (r-bionero)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-networkd3.

Change-Id: I45e5adacd16c70b194f878a7831550860ec4a16b
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
cb2f52c7ea
gnu: r-animalcules: Fix tests. 
* gnu/packages/bioconductor.scm (r-animalcules)[properties]: Record
updater-extra-native-inputs.
[arguments]: Add phase 'skip-bad-tests.
[native-inputs]: Add r-glmnet.

Change-Id: I24c6da9b6927cbf2756fb3411a5a29be19594276
 2025-04-16 11:00:55 +02:00
Ricardo Wurmus
6b33095a54
gnu: r-transcriptr: Add tests input. 
* gnu/packages/bioconductor.scm (r-transcriptr)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-txdb-hsapiens-ucsc-hg19-knowngene.

Change-Id: I12ec86acd5fb1fb7be24ffc947f035dc23945d59
 2025-04-16 11:00:54 +02:00
Ricardo Wurmus
8814cd92f8
gnu: r-trajectoryutils: Add test input. 
* gnu/packages/bioconductor.scm (r-trajectoryutils)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-biocparallel.

Change-Id: I01242353b10c92c2b548da5bf611438adb86a932
 2025-04-16 11:00:54 +02:00
Ricardo Wurmus
31cfb6f6e0
gnu: r-scry: Add test input. 
* gnu/packages/bioconductor.scm (r-scry)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-hdf5array.

Change-Id: I534051156a642e6f844be66a91a852b675d5fe9a
 2025-04-16 11:00:54 +02:00
Ricardo Wurmus
6c755665db
gnu: r-screpertoire: Add test inputs. 
* gnu/packages/bioconductor.scm (r-screpertoire)[properties]: Record
updater-extra-native-inputs.
[arguments]: Add phase 'disable-bad-tests.
[native-inputs]: Add r-seurat and r-vdiffr.

Change-Id: I93c4a64abc7f4a02927e10203583c22dca70a176
 2025-04-16 11:00:54 +02:00
Ricardo Wurmus
bca25b1e88
gnu: r-karyoploter: Add test input. 
* gnu/packages/bioconductor.scm (r-karyoploter)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-bsgenome-hsapiens-ucsc-hg19.

Change-Id: I140222f23a34218da02ef792853663d836a527f5
 2025-04-16 11:00:54 +02:00
Ricardo Wurmus
d89f7a9fb5
gnu: r-scannotatr: Disable tests. 
* gnu/packages/bioconductor.scm (r-scannotatr)[arguments]: Disable tests.

Change-Id: I6e0b0a9e62bb91bc00e16ce0de5f0f6baebb5e3f
 2025-04-16 11:00:54 +02:00
Ricardo Wurmus
460b62b507
gnu: r-bioccheck: Disable tests. 
* gnu/packages/bioconductor.scm (r-bioccheck)[arguments]: Disable tests.

Change-Id: I02e281be27ed93a7e0aff172fa5490492ccf6efc
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
3b72b4b999
gnu: r-txdbmaker: Add test input. 
* gnu/packages/bioconductor.scm (r-txdbmaker)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-runit.

Change-Id: I43a34f8a96060cd7742425c22959b8063c3e9643
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
311e86ed9f
gnu: r-rcistarget: Add test inputs. 
* gnu/packages/bioconductor.scm (r-rcistarget)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-doparallel and
r-rcistarget-hg19-motifdbs-cisbponly-500bp.

Change-Id: Icf6bb96a8bce319b4497bb23caebe00f527543f4
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
4ee3e42ce2
gnu: r-alpine: Disable tests. 
* gnu/packages/bioconductor.scm (r-alpine)[arguments]: Disable tests.

Change-Id: If7bc7cfacaf3796ddb0b1457cfeb797a049bd5fe
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
e95a7343e0
gnu: r-plyranges: Fix tests. 
* gnu/packages/bioconductor.scm (r-plyranges)[properties]: Record
updater-extra-native-inputs.
[arguments]: Disable three tests in new phase 'disable-bad-tests.
[native-inputs]: Add r-helloranges.

Change-Id: I4c091ee0b091a4152a62f4abf3a69573b486cedd
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
914ec5ff61
gnu: r-nebulosa: Add test input. 
* gnu/packages/bioconductor.scm (r-nebulosa)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-seurat.

Change-Id: I8a042f6658b027bc1e30b554792799e8b25cfa53
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
58f1ecca6f
gnu: r-mousegastrulationdata: Disable tests. 
* gnu/packages/bioconductor.scm (r-mousegastrulationdata)[arguments]: Disable
tests.

Change-Id: I2728d77ce339469862396cb19bd3649684ec840d
 2025-04-16 11:00:53 +02:00
Ricardo Wurmus
1ed4151792
gnu: r-mlinterfaces: Add test input. 
* gnu/packages/bioconductor.scm (r-mlinterfaces)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-e1071.

Change-Id: Icb884f7b6deeba4146ab08536e0ce5c82c5aa6f9
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
a9a54099a7
gnu: r-bandits: Add test input. 
* gnu/packages/bioconductor.scm (r-bandits)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-tximport.

Change-Id: I13b9f0b9e0ffb6f0de8396c70420b1cbedd7562e
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
432c3a4adf
gnu: r-flowsorted-blood-epic: Disable tests. 
* gnu/packages/bioconductor.scm (r-flowsorted-blood-epic)[arguments]: Disable
tests.

Change-Id: Ie568042f1d6ab6577fbb8719a449e3d7dd4e81fe
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
56e314260d
gnu: r-alevinqc: Add test input. 
* gnu/packages/bioconductor.scm (r-alevinqc)[native-inputs]: Add r-biocstyle.
[properties]: Record updater-extra-native-inputs.

Change-Id: I271c16a8823022dc27bf1a851def881d21d493d4
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
fb0e8ec133
gnu: r-cner: Add test inputs. 
* gnu/packages/bioconductor.scm (r-cner)[arguments]: Add phase
'disable-bad-tests.
[native-inputs]: Add r-bsgenome-drerio-ucsc-danrer10 and
r-bsgenome-hsapiens-ucsc-hg38.

Change-Id: I61f28337a3b7f36e8163fe7ce66cd7d31fbfc77b
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
6b091044f3
gnu: r-basics: Fix tests. 
* gnu/packages/bioconductor.scm (r-basics)[arguments]: Disable ERCC tests.
[properties]; Record updater-extra-native-inputs.
[native-inputs]: Add r-scrnaseq.

Change-Id: Ic60eb7ca4ca17c1328d779352c1692a394814b9e
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
f4115911c1
gnu: r-scrnaseq: Disable tests. 
* gnu/packages/bioconductor.scm (r-scrnaseq)[arguments]: Disable tests.

Change-Id: Ibf0483760443a12735d9e9eb8012084b4104f1d4
 2025-04-16 11:00:52 +02:00
Ricardo Wurmus
9cefde2bfa
gnu: r-batchelor: Disable one more test. 
* gnu/packages/bioconductor.scm (r-batchelor)[arguments]: Disable additional test.

Change-Id: I6519df53252d5ffd1b9bedf18941742c66fa0c73
 2025-04-16 11:00:51 +02:00
Ricardo Wurmus
c62a30615c
gnu: r-bambu: Disable tests. 
* gnu/packages/bioconductor.scm (r-bambu)[arguments]: Disable tests.

Change-Id: I49c9c43dfb87edc5659ca1e07b53762763118a37
 2025-04-16 11:00:51 +02:00
Ricardo Wurmus
da17b14a6d
gnu: r-alabaster-matrix: Add test input. 
* gnu/packages/bioconductor.scm (r-alabaster-matrix)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-chihaya.

Change-Id: Ic5696d44b545deec2799aa9821279eb6edb02b3c
 2025-04-16 11:00:51 +02:00
Ricardo Wurmus
7bccb2feec
gnu: r-tcgabiolinks: Add test inputs. 
* gnu/packages/bioconductor.scm (r-tcgabiolinks)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-edaseq, r-edger, and r-survminer.

Change-Id: I69d7936dbe829103c8fb3d9362d941e607b3166d
 2025-04-16 11:00:51 +02:00
Ricardo Wurmus
a542ac06fa
gnu: r-universalmotif: Add test inputs. 
* gnu/packages/bioconductor.scm (r-universalmotif)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Addd r-ape and r-ggtree.

Change-Id: Ie2feef6efeaaa33c9c2d18fbc2bc3949fb04042e
 2025-04-16 11:00:51 +02:00
Ricardo Wurmus
b5fcc5706e
gnu: r-sesame: Disable tests. 
* gnu/packages/bioconductor.scm (r-sesame)[arguments]: Disable tests.

Change-Id: I45d6e701bbfd091a0ef4703e71bf172f3c7ba6f6
 2025-04-16 11:00:51 +02:00
Ricardo Wurmus
10f043447e
gnu: r-singscore: Add test input. 
* gnu/packages/bioconductor.scm (r-singscore)[properties]: Record
updater-extra-native-inputs.
[native-inputs]: Add r-hexbin.

Change-Id: I90ba2809a8550885cf45331146855f16847b9ce8
 2025-04-16 11:00:51 +02:00