Kevin Menden
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7996a46178
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Merge pull request #235 from KevinMenden/master
add gatk4 bedtointervallist
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2021-02-19 13:35:15 +01:00 |
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kevinmenden
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c0693fa3db
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remove whitespace
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2021-02-19 13:30:40 +01:00 |
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kevinmenden
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c288e081b4
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initial commit adding mergevcfs
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2021-02-19 13:29:08 +01:00 |
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Kevin Menden
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5c325f2942
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Merge branch 'master' into master
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2021-02-19 13:08:43 +01:00 |
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Kevin Menden
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134f0ac78c
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Merge pull request #236 from KevinMenden/gatk4-bamtofastq
added gatk4 SamToFastq
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2021-02-19 13:07:10 +01:00 |
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kevinmenden
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908e55ee5c
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fixed tag
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2021-02-19 12:46:59 +01:00 |
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kevinmenden
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bd8ba42a8d
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added gatk4 SamToFastq
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2021-02-19 12:41:29 +01:00 |
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kevinmenden
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6dcaf5ffc8
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add gatk4 bedtointervallist
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2021-02-19 11:26:31 +01:00 |
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Harshil Patel
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01c0d335ca
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Merge pull request #223 from phue/bismark_genome_preparation
add bismark/genome_preparation + test
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2021-02-18 19:08:00 +00:00 |
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phue
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a963c67481
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bwameth: pass genome index as directory
instead of single files
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2021-02-18 11:51:36 +01:00 |
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phue
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0d8f5f0572
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add bismark/genome_preparation + tests
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2021-02-18 10:56:36 +01:00 |
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Patrick Hüther
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dba295155e
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Merge pull request #219 from phue/qualimap_bamqc
add qualimap/bamqc + test
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2021-02-18 10:09:03 +01:00 |
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phue
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0606c06a25
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qualimap/bamqc: remove unneeded variable definition
can just use task.cpus directly
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2021-02-18 10:00:49 +01:00 |
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Harshil Patel
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5695e4ccce
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Merge pull request #222 from phue/methyldackel
add methyldackel modules
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2021-02-17 22:17:26 +00:00 |
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Harshil Patel
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ecd26b388d
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Merge pull request #221 from heuermh/seqwish
Add module for seqwish/induce
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2021-02-17 22:14:49 +00:00 |
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phue
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52b00d4286
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add methyldackel/mbias + tests
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2021-02-17 19:27:57 +01:00 |
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phue
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5ad7c6bc51
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add methyldackel/extract + tests + testdata
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2021-02-17 19:18:55 +01:00 |
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phue
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1a414261c4
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bwameth/align: update checksums
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2021-02-17 18:35:39 +01:00 |
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phue
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84a5da0d91
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add bwameth/align module + tests
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2021-02-17 18:23:11 +01:00 |
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Michael L Heuer
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206b605666
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Add module for seqwish/induce
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2021-02-17 11:19:47 -06:00 |
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phue
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180b1cf36b
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add bwameth/index module + test
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2021-02-17 18:03:48 +01:00 |
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Patrick Hüther
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78cf182ed4
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Merge pull request #218 from phue/samtools_faidx
add samtools/faidx + tests
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2021-02-17 17:37:16 +01:00 |
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phue
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b5b259a2d9
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add qualimap/bamqc + test
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2021-02-17 17:34:51 +01:00 |
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FriederikeHanssen
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5f9aa7264e
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Add tests
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2021-02-17 17:25:41 +01:00 |
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Patrick Hüther
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0cbe0a4173
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Update tests/software/samtools/faidx/main.nf
Co-authored-by: Maxime Garcia <maxime.garcia@scilifelab.se>
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2021-02-17 17:24:50 +01:00 |
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FriederikeHanssen
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2654c52ed1
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Use list of reads as input, similar to dedup/extract
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2021-02-17 17:15:02 +01:00 |
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FriederikeHanssen
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bedc2972eb
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Add seqkit split2
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2021-02-17 17:09:24 +01:00 |
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phue
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a156bdfc03
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faidx: add filter
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2021-02-17 17:01:22 +01:00 |
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phue
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aafc6949d3
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faidx: add process label
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2021-02-17 16:56:45 +01:00 |
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phue
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3b1d126a0e
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add samtools/faidx + tests
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2021-02-17 16:46:34 +01:00 |
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Harshil Patel
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ed573db194
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Merge pull request #184 from MaxUlysse/master_fix_ci
fix: update checksum or filename
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2021-02-17 10:54:38 +00:00 |
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Harshil Patel
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4d656c8f5f
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Merge pull request #181 from drpatelh/fixes
Fix tests for iVar variants
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2021-02-17 10:08:57 +00:00 |
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MaxUlysse
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28fb5e8cbd
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fix: update checksum or filename
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2021-02-17 01:34:50 +01:00 |
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Harshil Patel
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f677a6a05e
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Merge pull request #183 from nf-core/MaxUlysse-patch-1
Update .markdownlint.yml
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2021-02-17 00:20:51 +00:00 |
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Harshil Patel
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67d4dab632
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Merge pull request #182 from drpatelh/rm_build
Remove Conda build ids for all modules
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2021-02-17 00:20:00 +00:00 |
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Maxime Garcia
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4c511757f3
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Update .markdownlint.yml
fix typo
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2021-02-17 01:15:21 +01:00 |
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drpatelh
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d47f9bb909
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@kevinmenden sanity fix
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2021-02-16 23:58:52 +00:00 |
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drpatelh
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dcc580e4fb
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Remove Conda build ids for all modules
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2021-02-16 23:58:23 +00:00 |
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Maxime Garcia
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842173be9f
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Merge pull request #175 from MaxUlysse/master_ISSUE_TEMPLATE
fix: add guidelines to PRs and issues
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2021-02-17 00:36:35 +01:00 |
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MaxUlysse
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ebb6d5de1f
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fix: Apply suggestions from code review
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2021-02-17 00:34:55 +01:00 |
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Harshil Patel
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412172cda6
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Merge pull request #180 from MaxUlysse/master_tabix_bgzip
Replace bcftools/bgzip by tabix/bgzip
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2021-02-16 23:32:23 +00:00 |
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Maxime Garcia
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75d1483417
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Apply suggestions from code review
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-17 00:32:06 +01:00 |
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drpatelh
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c6a0976f52
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Fix tests for iVar variants
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2021-02-16 23:29:15 +00:00 |
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MaxUlysse
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596bb18394
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fix: rename file to input and gz, plus fix tests
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2021-02-17 00:28:32 +01:00 |
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Harshil Patel
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a282ecd8c7
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Merge pull request #172 from andersgs/ivar-variant
Add ivar variants
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2021-02-16 23:20:30 +00:00 |
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Harshil Patel
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cf2f0762aa
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Update main.nf
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2021-02-16 23:06:26 +00:00 |
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Harshil Patel
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7c276d2974
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Update tests/software/ivar/variants/main.nf
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2021-02-16 23:01:27 +00:00 |
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Harshil Patel
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27020105aa
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Update tests/software/ivar/variants/main.nf
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2021-02-16 23:00:30 +00:00 |
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Harshil Patel
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de90d371dc
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Update tests/software/ivar/variants/main.nf
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2021-02-16 22:58:38 +00:00 |
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Harshil Patel
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23987bdad0
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Update tests/software/ivar/variants/main.nf
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2021-02-16 22:57:47 +00:00 |
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