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• a32c1373e4
  Update ci.yml Thomas A. Christensen II 2023-05-23 21:29:50 +0000
• a3323a6f1c
  Update ci.yml Thomas A. Christensen II 2023-05-23 21:12:33 +0000
• 3ef8ef67c9
  Update ci.yml Thomas A. Christensen II 2023-05-23 20:44:11 +0000
• 338fc72852
  Update ci.yml Thomas A. Christensen II 2023-05-23 20:38:28 +0000
• 03e1f80a10
  Update ci.yml Thomas A. Christensen II 2023-05-23 20:29:12 +0000
• 2fc6f8e3bf
  Merge pull request #296 from nf-core/post-patch-update dev James A. Fellows Yates 2023-05-15 12:29:14 +0200
• ea76a97d99
  Merge branch 'dev' into post-patch-update James A. Fellows Yates 2023-05-15 11:11:26 +0200
• 2263d96e73 Merge remote-tracking branch 'origin/master' into post-patch-update James Fellows Yates 2023-05-15 11:09:53 +0200
• 07b926a89e
  Merge pull request #294 from nf-core/patch master James A. Fellows Yates 2023-05-15 11:05:37 +0200
• 8ff8ab8b70
  Update CHANGELOG.md James A. Fellows Yates 2023-05-15 09:27:35 +0200
• 5d95151f54 Fix staging James Fellows Yates 2023-05-11 15:04:37 +0200
• e8b85d0b62
  Update nextflow.config James A. Fellows Yates 2023-05-11 14:19:50 +0200
• c0897ecc78 Bump version to 1.0.1 James Fellows Yates 2023-05-11 14:14:18 +0200
• 982fba1b58 Fix taxpasta not receiving taxonomy directory James Fellows Yates 2023-05-11 14:13:18 +0200
• 93fd168b4f
  Merge pull request #289 from nf-core/nf-core-template-merge-2.8 James A. Fellows Yates 2023-05-04 10:49:17 +0200
• 3a45c45101 Fix versions of other non-standard containers James Fellows Yates 2023-05-02 14:06:51 +0200
• dfb2e02eb3 Update gunzip James Fellows Yates 2023-05-02 14:06:00 +0200
• 2e980f1d15 Update CAT_FASTQ module James Fellows Yates 2023-05-02 14:03:44 +0200
• 87fd5f72d0 Fix template James Fellows Yates 2023-05-02 13:20:06 +0200
• 661cfbe012 Update UNTAR module James Fellows Yates 2023-05-02 13:19:35 +0200
• 727291999b
  Merge branch 'dev' into nf-core-template-merge-2.8 James A. Fellows Yates 2023-05-02 13:17:18 +0200
• 89096beb61
  Merge pull request #290 from nf-core/motus-docs-improvements James A. Fellows Yates 2023-04-29 18:36:18 +0200
• f11d7c7bb5 Comment out right part of function James Fellows Yates 2023-04-29 18:33:12 +0200
• 2dc8a88b67 Update changelog James Fellows Yates 2023-04-29 18:17:09 +0200
• 44286bf96d Improve mOTUS database input desciption James Fellows Yates 2023-04-29 18:14:30 +0200
• 8bc17cccfc Prettier James Fellows Yates 2023-04-29 18:09:09 +0200
• 1ef8119c59 Linting fixes deactivate accidental re-included function James Fellows Yates 2023-04-29 18:08:00 +0200
• bca6e645a8
  Merge branch 'dev' into nf-core-template-merge-2.8 James A. Fellows Yates 2023-04-29 17:58:15 +0200
• ac60d66956 Template update for nf-core/tools version 2.8 nf-core-bot 2023-04-28 14:26:38 +0000
• 9850bdf1fa
  Merge pull request #287 from nf-core/missing-changelog James A. Fellows Yates 2023-04-26 08:57:34 +0200
• 4f08b3697f
  Merge branch 'dev' into missing-changelog James A. Fellows Yates 2023-04-26 08:57:26 +0200
• c4ad03ff9f
  Merge pull request #276 from nf-core/feat-batch Moritz E. Beber 2023-04-23 11:17:29 +0200
• 66a166dbdc docs: tweak parameter schema description Moritz E. Beber 2023-04-22 21:23:27 +0200
• 08f06b9982
  Apply suggestions from code review Moritz E. Beber 2023-04-22 21:18:58 +0200
• 49086d9475 docs: add changelog entry Moritz E. Beber 2023-04-04 12:40:27 +0200
• 2725fe15a9 docs: create a schema entry for the new parameter Moritz E. Beber 2023-04-01 15:18:46 +0200
• 17a9493e6d fix: remove typo Moritz E. Beber 2023-03-30 16:51:41 +0200
• 70dd7cade9 feat: introduce sample batches for krakenuniq Moritz E. Beber 2023-03-30 16:49:22 +0200
• b299a25bc7
  Merge pull request #286 from nf-core/multiqc-optimisations James A. Fellows Yates 2023-04-21 22:44:36 +0200
• 9fa458f381
  Merge pull request #279 from nf-core/manifest-update James A. Fellows Yates 2023-04-21 22:44:11 +0200
• 2140928638
  Merge pull request #272 from nf-core/final-reads-saving James A. Fellows Yates 2023-04-21 15:21:35 +0200
• ee76a5f38b
  Update conf/modules.config James A. Fellows Yates 2023-04-21 13:44:03 +0200
• e000ac3038 Misssing changelog manual prettier [skip ci] James Fellows Yates 2023-04-21 06:09:49 +0200
• 5a09319fb3
  Merge branch 'dev' into multiqc-optimisations James A. Fellows Yates 2023-04-21 05:58:23 +0200
• 003862d9ea
  Merge pull request #285 from nf-core/update-kraken James A. Fellows Yates 2023-04-21 05:57:27 +0200
• c3c91780ab
  Merge pull request #280 from nf-core/replace-exit-with-error James A. Fellows Yates 2023-04-21 05:56:44 +0200
• 386b1c9dfd [automated] Fix linting with Prettier nf-core-bot 2023-04-21 03:56:12 +0000
• d06ac3713d
  Update README.md James A. Fellows Yates 2023-04-21 05:55:14 +0200
• 59f31469c3 Update CHANGELOG James Fellows Yates 2023-04-20 16:01:22 +0200
• 1eb951715f MultiQC optimisations for DIAMOND and Falco James Fellows Yates 2023-04-20 15:57:57 +0200
• 0ed110c529 BUmp Kraken2 nf-core module to prevent huge logs James Fellows Yates 2023-04-20 15:20:26 +0200
• 4f7e2eed8c [automated] Fix linting with Prettier nf-core-bot 2023-04-20 13:11:19 +0000
• 31e3c21dcb Make all saveAs conditions consistent James Fellows Yates 2023-04-20 15:10:39 +0200
• f476b49d29
  Add team sectionb James A. Fellows Yates 2023-04-20 15:05:49 +0200
• 5d90c775e9 Logic safety! James Fellows Yates 2023-04-20 14:57:51 +0200
• b3e602dcb3
  Merge branch 'dev' into replace-exit-with-error James A. Fellows Yates 2023-04-20 14:38:25 +0200
• 0245c4880b
  Merge branch 'dev' into final-reads-saving James A. Fellows Yates 2023-04-20 14:18:10 +0200
• 105bac7bb9
  Apply suggestions from code review James A. Fellows Yates 2023-04-20 12:59:33 +0200
• ee031ebf91
  Apply suggestions from code review James A. Fellows Yates 2023-04-20 12:58:23 +0200
• 255b492b44
  Merge pull request #274 from sofstam/samtools_fastq Sofia Stamouli 2023-04-18 16:28:31 +0200
• 3f34603c00 Prettier James Fellows Yates 2023-04-15 12:54:07 +0200
• ce97a1124e Add final documentation James Fellows Yates 2023-04-15 12:48:52 +0200
• 94e88d788d Everywhere account when no-runmerging for single libs James Fellows Yates 2023-04-04 18:36:37 +0200
• c47b9e55fa Mix reads in emit sofstam 2023-04-04 18:01:02 +0200
• e5e0aab59d More tweaks James Fellows Yates 2023-04-04 16:29:37 +0200
• ca9c0cf8fd Further fixes James Fellows Yates 2023-04-04 15:52:23 +0200
• 5eee462b5a
  Update LICENSE James A. Fellows Yates 2023-04-04 11:45:06 +0200
• 59f8d75e9e update CHAGENLGO James A. Fellows Yates 2023-04-04 09:43:01 +0000
• 03c3169f10 Replace all instance of exit 1 with error for safety and consistency James A. Fellows Yates 2023-04-04 09:41:22 +0000
• 1eeeb8a214
  Reduce authors to main + other contributors James A. Fellows Yates 2023-04-04 11:19:22 +0200
• d6b60643d9 Prettier sofstam 2023-03-31 10:35:40 +0200
• 021f5f0a22 Remove samtools/bam2fq module sofstam 2023-03-31 10:28:36 +0200
• 8745fc625c Correct output file from samtools/fastq sofstam 2023-03-29 15:36:20 +0200
• e274823f73 Add conf for samtools/fastq sofstam 2023-03-27 12:42:28 +0200
• a3d077fcbc Prettier sofstam 2023-03-23 17:05:34 +0100
• 6895e45768 Fix a few conditional bugs and related James Fellows Yates 2023-03-23 15:46:02 +0100
• 85905127b8 Update changelog sofstam 2023-03-23 15:34:47 +0100
• 102d53bd75 Subsitute samtools/bam2fq with samtools/fastq sofstam 2023-03-23 15:30:07 +0100
• 3b90064ba4 Start adding conditions in modules.conf - non-cat not working James Fellows Yates 2023-03-22 15:39:45 +0100
• 58795264e4
  Merge pull request #271 from nf-core/prototaxites-docs-updates Sofia Stamouli 2023-03-21 10:14:14 +0100
• e0b112cdce
  Merge branch 'dev' into prototaxites-docs-updates Sofia Stamouli 2023-03-21 08:44:48 +0100
• 8deb32da72
  Merge pull request #270 from nf-core/index-warn-fix James A. Fellows Yates 2023-03-20 21:10:40 +0100
• 74bc6b7dd3 Logical ordering and improved commenting James Fellows Yates 2023-03-17 22:38:05 +0100
• 68d131af34 Remove leftover dump James Fellows Yates 2023-03-17 22:30:43 +0100
• f9af0040bf Add multi-run meta information James Fellows Yates 2023-03-17 22:30:29 +0100
• b0939c3ae9 Standardised taxon table and mOTU database docs improvement James Fellows Yates 2023-03-17 21:03:54 +0100
• fbecfb6f33 Fix broken check for host read removal index James Fellows Yates 2023-03-17 20:47:09 +0100
• af61e007b3
  Merge pull request #269 from nf-core/reduce-full-test-output James A. Fellows Yates 2023-03-17 11:46:08 +0100
• 142ff2f099
  Apply suggestions from code review James A. Fellows Yates 2023-03-17 10:26:38 +0100
• 577d270423 Deactivate saving of reads and other large files for full tests James Fellows Yates 2023-03-17 10:14:40 +0100
• 66a98c2bc8
  Merge pull request #265 from genomic-medicine-sweden/dev James A. Fellows Yates 2023-03-13 12:56:40 +0100
• 1347f27c11 Update changelog after release sofstam 2023-03-13 12:21:37 +0100
• c3f1adf09b
  First release Zenodo update James A. Fellows Yates 2023-03-13 12:13:17 +0100
• 68a893c449
  Merge pull request #251 from nf-core/dev James A. Fellows Yates 2023-03-13 12:06:06 +0100
• eaef6ac9bc
  Apply suggestions from code review James A. Fellows Yates 2023-03-13 10:57:36 +0100
• ae3ee470ee
  Merge pull request #264 from sofstam/update_taxpasta_version Sofia Stamouli 2023-03-13 10:25:55 +0100
• 0007c99d1c
  Merge branch 'dev' into update_taxpasta_version Sofia Stamouli 2023-03-13 09:38:10 +0100
• 8ecb655952 Prettier sofstam 2023-03-13 09:11:53 +0100
• 213f4e4f23 Updata taxpasta sofstam 2023-03-13 08:58:59 +0100
• 3c4ee927e3
  Merge pull request #263 from nf-core/docs-updates James A. Fellows Yates 2023-03-12 12:10:34 +0100