Sofia Stamouli
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9621d34c4a
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Update nextflow_schema.json
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 14:18:11 +01:00 |
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Sofia Stamouli
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54af021965
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Update nextflow_schema.json
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 14:18:01 +01:00 |
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sofstam
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99fe8adb1b
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Add helptext
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2023-02-27 13:49:02 +01:00 |
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sofstam
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c94bfb0cf1
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Fix prettier
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2023-02-27 13:09:07 +01:00 |
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sofstam
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4dea308c22
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Linting
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2023-02-27 11:34:19 +01:00 |
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Sofia Stamouli
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69430ef851
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Update nextflow.config
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 11:02:55 +01:00 |
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Sofia Stamouli
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e3e465df1f
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Update nextflow_schema.json
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 11:00:59 +01:00 |
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Sofia Stamouli
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d454ceed86
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Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 11:00:42 +01:00 |
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Sofia Stamouli
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1aef73cda8
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Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 10:39:44 +01:00 |
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Sofia Stamouli
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d96e0a17a5
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Update conf/modules.config
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2023-02-27 10:39:10 +01:00 |
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sofstam
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489650feb8
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Linting
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2023-02-27 10:24:14 +01:00 |
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sofstam
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2f0c68a833
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Last review suggestions
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2023-02-27 10:15:42 +01:00 |
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sofstam
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78d7001bea
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Document the taxonomy parameters
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2023-02-24 16:53:49 +01:00 |
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sofstam
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a7ae57c94e
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Fix linting
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2023-02-24 15:53:54 +01:00 |
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sofstam
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e18e68faa5
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Apply review suggestion
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2023-02-24 15:50:24 +01:00 |
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sofstam
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5dc3cbc278
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Rename taxonomy argument
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2023-02-24 13:04:38 +01:00 |
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sofstam
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5a6fcf1f42
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Update taxpasta/merge to version 0.2.0 and add taxonomy argument
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2023-02-24 11:44:07 +01:00 |
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James A. Fellows Yates
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78c2d275e6
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Merge pull request #245 from nf-core/ku-docs [skip ci]
Fix typo in schema docs [skip ci]
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2023-02-23 14:35:54 +01:00 |
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James Fellows Yates
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cd4614f387
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Fix typo in schema docs [skip ci]
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2023-02-23 14:00:00 +01:00 |
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James A. Fellows Yates
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91255b4d2d
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Merge pull request #244 from nf-core/taxpasta-ku-fix
Fix KrakenUniq Taxpasta issue
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2023-02-22 14:20:06 +01:00 |
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James A. Fellows Yates
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32c0d8d6a5
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Fix KrakenUniq Taxpasta issue
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2023-02-22 08:24:48 +01:00 |
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James A. Fellows Yates
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877f6ca8b3
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Merge pull request #243 from nf-core/rma2info-label-fix
Fix label base.config for MEGAN_RMA2INFO
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2023-02-20 21:46:32 +01:00 |
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James A. Fellows Yates
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3d1659dac7
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Merge pull request #242 from genomic-medicine-sweden/minor_fixes
Remove standardised_tables
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2023-02-20 20:43:09 +01:00 |
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James A. Fellows Yates
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9847b8d9a7
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Fix label base.config for MEGAN_RMA2INFO
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2023-02-20 20:35:22 +01:00 |
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sofstam
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90aa7551a9
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Fix the motus_versions
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2023-02-20 14:27:57 +01:00 |
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sofstam
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3fa1b0c17d
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Remove standardised_tables
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2023-02-20 13:48:04 +01:00 |
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Sofia Stamouli
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599c8d3592
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Merge pull request #241 from genomic-medicine-sweden/add_taxpasta_merge
Add taxpasta_merge to taxprofiler
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2023-02-20 13:15:30 +01:00 |
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sofstam
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04bc978ef6
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Remove taxonomy parameter from taxpasta
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2023-02-20 11:56:06 +01:00 |
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sofstam
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211b5f3a68
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Apply review suggestions
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2023-02-20 11:49:31 +01:00 |
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sofstam
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90a5668007
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run_malt false in test and add text in output.md
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2023-02-17 15:38:36 +01:00 |
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sofstam
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f0aa89cb87
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Rename taxpasta parameters and remove samplesheet parameter
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2023-02-17 14:47:29 +01:00 |
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sofstam
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604df56fdb
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Add a description about the files used by taxpasta
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2023-02-17 13:49:13 +01:00 |
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sofstam
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08bfa6a1a7
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Apply review suggestions for docs
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2023-02-17 13:43:38 +01:00 |
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sofstam
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5ebc22dd29
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Add icon in nextflow_schema.json
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2023-02-17 12:58:33 +01:00 |
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sofstam
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27b7171b96
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Apply review suggestions
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2023-02-17 09:16:58 +01:00 |
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sofstam
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c9b521234b
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Prettier for docs
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2023-02-16 16:38:00 +01:00 |
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sofstam
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dad64a688d
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Add documentation for taxpasta module
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2023-02-16 16:33:36 +01:00 |
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sofstam
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25d44c955e
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Merge dev into add_taxpasta_merge
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2023-02-16 15:16:05 +01:00 |
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sofstam
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2456038567
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Merge branch 'dev' into add_taxpasta_merge
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2023-02-16 15:07:51 +01:00 |
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James A. Fellows Yates
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bb3c49389f
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Merge pull request #240 from nf-core/move-kaiju2table
Move kaiju2table to profiling
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2023-02-16 15:03:59 +01:00 |
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sofstam
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de6a4214ef
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Add taxpasta_merge to taxprofiler
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2023-02-16 14:29:52 +01:00 |
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James Fellows Yates
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7dfcdd015b
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Re-add the 'native' combined kaiju output
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2023-02-16 14:02:13 +01:00 |
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James A. Fellows Yates
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4e818efe6d
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Update docs/output.md
Co-authored-by: Sofia Stamouli <91951607+sofstam@users.noreply.github.com>
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2023-02-16 13:45:04 +01:00 |
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James Fellows Yates
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79b4db9a34
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Move kaiju2table to profiling
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2023-02-16 13:39:05 +01:00 |
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James A. Fellows Yates
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21d9135b14
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Merge pull request #238 from nf-core/process-optmisations
Resource optimisation
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2023-02-09 15:41:30 +01:00 |
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James Fellows Yates
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ce1118930d
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Resource optimisation
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2023-02-09 13:33:39 +01:00 |
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James Fellows Yates
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cc7d219267
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Revert "optimisation for single-cpu processes"
This reverts commit a731669b8e .
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2023-02-09 13:32:29 +01:00 |
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James Fellows Yates
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a731669b8e
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optimisation for single-cpu processes
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2023-02-09 13:31:57 +01:00 |
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James A. Fellows Yates
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45ac6fedc2
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Merge pull request #237 from nf-core/bracken-params
Support Kraken and Bracken db_params in database sheet
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2023-02-09 10:59:27 +01:00 |
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James A. Fellows Yates
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70eb84b8d5
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Apply suggestions from code review
Co-authored-by: Moritz E. Beber <midnighter@posteo.net>
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2023-02-09 08:01:52 +01:00 |
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