James Fellows Yates
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ab0c62bdc1
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Post-release tweaks to usage.md
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2022-12-23 16:23:29 +01:00 |
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James A. Fellows Yates
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75a95d5ed8
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Merge pull request #143 from genomic-medicine-sweden/update_usage
Update usage.md
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2022-12-23 15:14:12 +01:00 |
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James A. Fellows Yates
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acba31a8d6
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Update taxprofiler.nf
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2022-12-23 15:08:01 +01:00 |
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James A. Fellows Yates
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e586747680
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Add missing comma to list
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2022-12-23 15:06:26 +01:00 |
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James A. Fellows Yates
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2de049399d
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Merge pull request #206 from genomic-medicine-sweden/path_params
Add path parameters
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2022-12-23 15:05:59 +01:00 |
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sofstam
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6ebfdcd017
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Add path parameters
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2022-12-23 13:40:22 +01:00 |
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Sofia Stamouli
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59fd676ab3
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Merge pull request #205 from genomic-medicine-sweden/optional_untar
Optional untar on dbs
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2022-12-23 13:14:04 +01:00 |
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Sofia Stamouli
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41c1ae9d1a
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Commit suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-23 12:20:37 +01:00 |
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sofstam
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85906ab1cb
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Optional untar on dbs
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2022-12-23 11:25:57 +01:00 |
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Sofia Stamouli
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ec9c7cfedc
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Prettier
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2022-12-22 11:10:54 +01:00 |
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Sofia Stamouli
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2f291731c1
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Merge branch 'nf-core:dev' into update_usage
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2022-12-22 11:09:50 +01:00 |
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Sofia Stamouli
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1eeb3b337a
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Update usage.md
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2022-12-22 11:07:09 +01:00 |
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Sofia Stamouli
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29978d83b9
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Update centrifuge section
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2022-12-22 11:03:49 +01:00 |
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Sofia Stamouli
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d6e0d404e3
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Update docs/usage.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-22 09:18:00 +01:00 |
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Sofia Stamouli
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ba43b0daa4
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Update docs/usage.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-21 09:26:38 +01:00 |
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Sofia Stamouli
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35b296e5fd
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Merge pull request #202 from nf-core/nf-core-template-merge-2.7.2
Important! Template update for nf-core/tools v2.7.2
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2022-12-21 09:18:40 +01:00 |
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James A. Fellows Yates
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361700550e
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Merge pull request #203 from nf-core/kraken-uniq-bump
Bump KrakenUniq version
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2022-12-20 21:51:18 +01:00 |
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James A. Fellows Yates
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1279437aa1
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Apply suggestions from code review
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2022-12-20 21:48:08 +01:00 |
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Sofia Stamouli
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1706555eff
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Prettier
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2022-12-20 20:10:05 +01:00 |
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James Fellows Yates
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612f532fb2
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Bump KrakenUniq version
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2022-12-20 20:08:12 +01:00 |
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Sofia Stamouli
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24a8da2086
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Fix linting
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2022-12-20 19:59:55 +01:00 |
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Sofia Stamouli
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d691b89727
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Merge branch 'dev' into nf-core-template-merge-2.7.2
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2022-12-20 15:14:41 +01:00 |
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James A. Fellows Yates
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25bb4304e8
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Merge pull request #187 from nf-core/revert-pep
Revert PEP validation back to python samplesheet check
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2022-12-20 15:03:18 +01:00 |
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Sofia Stamouli
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7be3cfc450
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Review suggestions
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2022-12-20 15:00:17 +01:00 |
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Sofia Stamouli
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502a4a81cd
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Merge branch 'nf-core:dev' into update_usage
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2022-12-20 14:11:05 +01:00 |
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James Fellows Yates
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656956b0f9
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Black formatting
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2022-12-20 14:08:42 +01:00 |
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James Fellows Yates
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577da7e835
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Remove .first() as the module only executes once anyway and we get a ugly warning
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2022-12-20 13:59:14 +01:00 |
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James A. Fellows Yates
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41063bc670
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Apply suggestions from code review
Co-authored-by: Moritz E. Beber <midnighter@posteo.net>
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2022-12-20 13:56:01 +01:00 |
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James Fellows Yates
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11db981a88
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minor fixes
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2022-12-20 13:55:15 +01:00 |
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James A. Fellows Yates
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7709245874
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Update subworkflows/local/input_check.nf
Co-authored-by: Moritz E. Beber <midnighter@posteo.net>
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2022-12-20 13:54:05 +01:00 |
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nf-core-bot
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ab591e01ff
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Template update for nf-core/tools version 2.7.2
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2022-12-19 12:10:58 +00:00 |
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Sofia Stamouli
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b5c72894fd
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Merge pull request #194 from nf-core/multiqc_config
Configuration of multiqc report
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2022-12-16 13:42:55 +01:00 |
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Sofia Stamouli
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07a1cfae62
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Update assets/multiqc_config.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-16 11:46:42 +01:00 |
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Sofia Stamouli
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5a592f086e
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Update assets/multiqc_config.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-16 11:46:35 +01:00 |
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Sofia Stamouli
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a2c81e33fd
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Prettier
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2022-12-16 08:38:58 +01:00 |
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Sofia Stamouli
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d6db04503e
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Configuration of multiqc report
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2022-12-15 17:04:45 +01:00 |
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James A. Fellows Yates
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aa117e8af9
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Merge pull request #192 from nf-core/publishing-fix
Fix publishing of log files of rpreprocessing steps
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2022-12-15 14:39:55 +01:00 |
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James Fellows Yates
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0bdc119f9c
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Include falco patch
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2022-12-15 13:27:41 +01:00 |
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James Fellows Yates
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9e6a91aff9
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Distinguish Kraken2 from Bracken
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2022-12-15 13:25:01 +01:00 |
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James Fellows Yates
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3b86a22556
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Fix falco publication names
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2022-12-15 12:57:49 +01:00 |
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James Fellows Yates
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88589fbc53
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Fix publishing of log files of rpreprocessing steps
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2022-12-15 10:35:06 +01:00 |
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Sofia Stamouli
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644c4ab831
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Review suggestions
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2022-12-13 12:00:32 +01:00 |
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Sofia Stamouli
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3282f5944b
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Apply prettier
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2022-12-13 11:28:17 +01:00 |
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sofstam
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d99706f43d
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Move database section and alphabetical order
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2022-12-13 11:23:07 +01:00 |
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Sofia Stamouli
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f80adee9e2
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Review suggestions and prettier
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2022-12-13 09:50:05 +01:00 |
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Sofia Stamouli
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1eb3da758b
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Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-13 09:38:09 +01:00 |
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Sofia Stamouli
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97e48075c8
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Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-12-13 09:37:43 +01:00 |
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James A. Fellows Yates
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578081df2e
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Merge pull request #189 from nf-core/database-check
Adds (native groovy!) database check
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2022-12-13 08:43:00 +01:00 |
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James A. Fellows Yates
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971f6a6ea8
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Merge pull request #190 from nf-core/motus-update-version
Update mOTUs to 3.0.3
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2022-12-12 18:24:05 +01:00 |
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Sofia Stamouli
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a99f89af77
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Apply review suggestions
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2022-12-12 16:30:28 +01:00 |
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