Harshil Patel
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cdd9be0a2d
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Update tests/software/ivar/trim/main.nf
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2021-02-13 08:16:44 +00:00 |
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Anders Goncalves da Silva
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47670a12ad
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Fix ivar trim test.yml
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2021-02-12 16:03:18 -08:00 |
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Anders Goncalves da Silva
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ed74d366bf
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Clean up ivar trim main.nf
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2021-02-12 16:03:07 -08:00 |
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Anders Goncalves da Silva
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6dca7799e6
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Add ivar trim
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2021-02-12 16:02:10 -08:00 |
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Harshil Patel
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63a20e7b5c
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Merge pull request #168 from JoseEspinosa/bcftools_merge
Add bcftools merge module
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2021-02-12 23:20:30 +00:00 |
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JoseEspinosa
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5313698705
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Add bcftools merge module
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2021-02-13 00:08:57 +01:00 |
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Harshil Patel
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96d3b0a18b
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Update tests/software/ivar/consensus/main.nf
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2021-02-12 23:02:25 +00:00 |
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Harshil Patel
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f8916060f8
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Update tests/software/ivar/consensus/main.nf
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2021-02-12 23:02:19 +00:00 |
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Anders Goncalves da Silva
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ffc849761d
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Edit test to output mpileup and passing args to samtools
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2021-02-12 14:43:19 -08:00 |
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Anders Goncalves da Silva
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487ec7b793
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Fix test.yml
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2021-02-12 14:42:42 -08:00 |
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Anders Goncalves da Silva
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24b212318b
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Merge branch 'master' into ivar-consensus
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2021-02-12 11:51:24 -08:00 |
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Anders Goncalves da Silva
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8b3c16a518
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Add ref FASTA to test main.nf
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2021-02-12 11:29:16 -08:00 |
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JoseEspinosa
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fafe068192
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Fixing test tags
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2021-02-12 18:49:57 +01:00 |
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JoseEspinosa
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0688230863
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Revert since fixes to test were not working
This reverts commit d7a219e88d .
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2021-02-12 18:02:32 +01:00 |
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JoseEspinosa
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8e23e1839d
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Trying to fix tests
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2021-02-12 17:56:51 +01:00 |
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JoseEspinosa
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d7a219e88d
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Fix test.yml
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2021-02-12 17:37:49 +01:00 |
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JoseEspinosa
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6e8b63fc26
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Add cat fastq module
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2021-02-12 17:22:07 +01:00 |
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Maxime Garcia
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27be87ac72
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Merge pull request #135 from drpatelh/bwa
Update indices syntax for BWA index and mem modules
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2021-02-12 12:45:38 +01:00 |
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Anders Goncalves da Silva
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df9125b46a
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Fix test name
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 12:05:01 -08:00 |
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Anders Goncalves da Silva
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40bbf94ef9
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Update filename for outputted mpileup file in test
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 12:04:46 -08:00 |
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Anders Goncalves da Silva
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68de6fef0d
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Fix indentation
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 12:04:15 -08:00 |
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Anders Goncalves da Silva
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ffa9cf85b1
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Clean up header params
I used these for testing and forgot to remove them
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 12:03:50 -08:00 |
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Anders Goncalves da Silva
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1f6419f8f5
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Fix indentation
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 10:55:24 -08:00 |
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drpatelh
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1d00a4a11c
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Update md5sum
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2021-02-09 23:31:39 +00:00 |
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drpatelh
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79d730f2c3
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Change output name
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2021-02-09 23:27:08 +00:00 |
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drpatelh
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7f629bca45
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OCDness
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2021-02-09 23:26:55 +00:00 |
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Harshil Patel
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28866f3dc7
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Update tests/software/bedtools/maskfasta/main.nf
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2021-02-09 21:36:38 +00:00 |
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Harshil Patel
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aaa088dba8
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Update tests/software/bedtools/getfasta/main.nf
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2021-02-09 21:34:29 +00:00 |
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Anders Goncalves da Silva
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8f546a1f95
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Add ivar consensus
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2021-02-09 10:26:35 -08:00 |
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JoseEspinosa
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68b85d9191
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Merge remote-tracking branch 'upstream/master' into bedtools_getfasta
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2021-02-09 18:23:24 +01:00 |
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JoseEspinosa
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e118bc049a
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Add bedtools getfasta module
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2021-02-09 17:56:51 +01:00 |
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JoseEspinosa
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7536b386a5
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Correct channel declaration on bedtools_maskfasta
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2021-02-09 17:56:01 +01:00 |
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JoseEspinosa
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12ae7b0bff
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Adding blast blastn module
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2021-02-09 16:58:36 +01:00 |
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JoseEspinosa
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c23b355b35
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Add blast makeblastdb module
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2021-02-09 15:44:34 +01:00 |
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JoseEspinosa
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c93e96101a
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Add untar module
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2021-02-09 11:50:32 +01:00 |
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JoseEspinosa
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9b65961828
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Fix file output path on test
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2021-02-09 10:22:50 +01:00 |
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JoseEspinosa
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f7f06dd6e8
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Add gunzip module
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2021-02-09 10:05:55 +01:00 |
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Harshil Patel
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46e5df2cf7
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Merge pull request #151 from drpatelh/bedtools
Follow up fixes for bedtools modules added in #79
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2021-02-09 01:54:31 +00:00 |
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Harshil Patel
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84cf5ea2ef
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Merge pull request #153 from JoseEspinosa/bedtools_maskfasta
Add bedtools maskfasta module
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2021-02-08 23:11:00 +00:00 |
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JoseEspinosa
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1b3e5e0283
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Fixing module name in test.yml
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2021-02-08 23:45:01 +01:00 |
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JoseEspinosa
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02d10c25a3
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Add bedtools maskfasta module
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2021-02-08 23:41:10 +01:00 |
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drpatelh
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0b9e32e32d
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Remove complement suffix from tests
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2021-02-08 22:25:13 +00:00 |
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Harshil Patel
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0f6830f7cc
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Update tests/software/bcftools/consensus/main.nf
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2021-02-08 21:41:24 +00:00 |
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JoseEspinosa
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f8882de456
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Renaming test ymls just to: software tool
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2021-02-08 21:56:53 +01:00 |
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JoseEspinosa
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f4e322f88d
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Merging upstream changes
# Conflicts:
# .github/filters.yml
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2021-02-08 18:09:41 +01:00 |
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JoseEspinosa
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4fa38ebb7a
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Separate test data to break dependencies between bcftools modules tests
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2021-02-08 16:51:21 +01:00 |
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JoseEspinosa
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83cc25860d
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Rearranging tests to test each module separately
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2021-02-08 15:16:51 +01:00 |
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JoseEspinosa
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5071bf5914
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Merge remote-tracking branch 'upstream/master' into bcftools_viralrecon
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2021-02-08 10:45:57 +01:00 |
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drpatelh
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83a50d8ae0
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Rename SOFTWARE_TOOL to TOOL_SUBTOOL
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2021-02-07 23:20:53 +00:00 |
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drpatelh
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5779b180da
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Fix bedtools sort module
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2021-02-07 21:32:43 +00:00 |
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