James Fellows Yates
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873a13e028
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Merge remote-tracking branch 'origin/dev' into porechop-log
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2022-07-29 09:51:34 +02:00 |
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Mahwash Jamy
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49487593e2
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Merge branch 'nf-core:dev' into diamond-update
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2022-07-28 15:48:59 +02:00 |
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sofstam
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cecbb41f88
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Update centrifuge/kreport
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2022-07-27 14:42:35 +02:00 |
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James A. Fellows Yates
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64f01fcfe0
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Merge branch 'dev' into porechop-log
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2022-07-20 14:05:23 +02:00 |
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James Fellows Yates
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33a5402b25
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Add emitting porechop logs to multiqc and fix collection of others
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2022-07-19 13:50:39 +02:00 |
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sofstam
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3f5fa8cc7a
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Merge branch 'dev' into update_filtlong
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2022-07-19 13:50:28 +02:00 |
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mjamy
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035b4b7a17
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Update the dev branch with the DIAMOND module update
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2022-07-15 16:28:07 +02:00 |
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James A. Fellows Yates
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c215ed5607
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Merge branch 'dev' into motus/merge
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2022-07-15 10:52:42 +02:00 |
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sofstam
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6b00360ff5
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Merge branch 'dev' into update_filtlong
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2022-07-15 10:05:43 +02:00 |
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James Fellows Yates
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eaa69b65d8
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Update mOTUs profile module and mix log for multiqc
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2022-07-13 12:38:30 +02:00 |
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sofstam
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4a316df209
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Update the dev branch with the filtlong update
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2022-07-12 17:15:36 +02:00 |
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James Fellows Yates
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a0ee82bf43
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Add motus/merge and biom support
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2022-07-12 11:39:26 +02:00 |
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James A. Fellows Yates
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8082c7d108
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Merge pull request #97 from nf-core/malt-to-krona
Add Krona support for MALT
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2022-07-05 15:17:52 +02:00 |
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James A. Fellows Yates
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26e31c782d
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Merge branch 'dev' into motus
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2022-07-04 13:14:42 +02:00 |
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James Fellows Yates
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447b8f0905
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Get fixed Krona module and add Krona taxonomy to test profile
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2022-07-01 17:21:19 +02:00 |
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James Fellows Yates
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02c06b9f7b
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Add support for MALT display in Krona, tweaks other krona modules to dispaly tool name in output file
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2022-06-30 18:33:11 +02:00 |
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James A. Fellows Yates
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913080a5b1
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Merge pull request #96 from MillironX/feature/kaiju2krona
Add Krona output for Kaiju profiles
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2022-06-29 09:27:25 +02:00 |
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James A. Fellows Yates
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5e554a3a0b
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Merge pull request #91 from MillironX/feature/kreport2krona
Add Krona output for Kraken classification
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2022-06-27 16:55:55 +02:00 |
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5b80c7cab9
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Install KAIJU_KAIJU2KRONA
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2022-06-27 08:58:28 -05:00 |
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James Fellows Yates
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4ff2145e44
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Roll back MALT version
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2022-06-20 08:23:14 +02:00 |
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5da8d5b741
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Install KRONA_KTIMPORTTEXT
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2022-06-14 10:34:34 -05:00 |
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87678c127b
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Add KRONA_CLEANUP process module
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2022-06-14 10:34:33 -05:00 |
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a84f693479
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Install KRAKENTOOLS_KREPORT2KRONA module
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2022-06-14 08:13:36 -05:00 |
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JIANHONG OU
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c8a59adbce
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remove the database auto-download for mOTUs.
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2022-06-03 14:13:58 -04:00 |
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James A. Fellows Yates
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96fecb2bfc
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Merge branch 'dev' into support-aligned-reads
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2022-06-03 13:48:54 +02:00 |
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James A. Fellows Yates
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53c4399052
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Merge branch 'dev' into motus
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2022-06-02 21:38:35 +02:00 |
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James Fellows Yates
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16ec5bf74a
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Update parameter names
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2022-05-31 20:11:19 +02:00 |
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James Fellows Yates
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310ac6b450
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Merge branch 'dev' of github.com:nf-core/taxprofiler into add-filtlong
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2022-05-31 13:05:52 +02:00 |
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JIANHONG OU
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68d0cc00fa
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add motus profile.
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2022-05-23 08:05:06 -04:00 |
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James Fellows Yates
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87a1d80519
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Add working output for Kraken2/Centrifuge/DIAMOND
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2022-05-07 05:22:35 +02:00 |
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ljmesi
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59c7f5a5b1
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Update samtools/bam2fq
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2022-05-05 08:38:41 +02:00 |
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ljmesi
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f4abbe280a
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Fix back to nf-core modules version
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2022-05-03 12:56:49 +02:00 |
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ljmesi
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58d4dec70b
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Update samtools view
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2022-05-03 11:09:54 +02:00 |
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ljmesi
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afdebaf09a
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Remove own modification to a module
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2022-05-03 10:15:11 +02:00 |
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ljmesi
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a821f748ee
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Add modules
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2022-05-03 09:28:46 +02:00 |
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James Fellows Yates
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031cb45934
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Add initial longread QC filtering - requires filtlong module update
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2022-05-01 07:18:14 +02:00 |
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James Fellows Yates
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8126d16dee
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Add draft version of DIAMOND
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2022-04-29 21:59:42 +02:00 |
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sofstam
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d082d67bcb
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Add kaiju2table to taxprofiler
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2022-04-25 17:36:29 +02:00 |
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sofstam
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c00ca1c2b8
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Add centrifuge kreport in taxprofiler
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2022-04-22 15:24:10 +02:00 |
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Sofia Stamouli
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236141f065
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Resolve conflicts with dev
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2022-04-20 10:17:10 +02:00 |
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James A. Fellows Yates
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6fecb3eeb7
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Merge pull request #54 from nf-core/dev
Get upstream changes
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2022-04-16 06:17:33 +02:00 |
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sofstam
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68ce5843a4
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Add kaiju in taxprofiler
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2022-04-13 18:51:56 +02:00 |
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James Fellows Yates
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de57340526
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Start work
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2022-04-13 11:49:35 +02:00 |
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James A. Fellows Yates
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025083061e
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Merge branch 'dev' into hostremoval
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2022-04-11 13:36:03 +02:00 |
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Sofia Stamouli
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fd5ebea9a6
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Remove old centrifuge module
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2022-04-08 10:57:58 +02:00 |
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sofstam
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606e5da7d5
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Check if PR works with centrifuge/centrifuge module
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2022-04-07 16:13:17 +02:00 |
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James A. Fellows Yates
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b554aa3e4d
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Merge branch 'dev' into hostremoval
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2022-04-07 14:00:10 +02:00 |
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James A. Fellows Yates
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23fb319779
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Merge branch 'dev' into complexity-filter-bbduk
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2022-04-05 13:11:15 +02:00 |
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Moritz E. Beber
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c54c32c494
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chore: update adapterremoval
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2022-04-05 10:18:34 +02:00 |
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James A. Fellows Yates
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3d662d2e06
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Merge branch 'dev' into complexity-filter-bbduk
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2022-04-04 21:19:36 +02:00 |
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