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Author SHA1 Message Date
kevinmenden
69a41cadbc added pangolin module 2021-01-29 11:03:54 +01:00
kevinmenden
d91cd73e52 added test workflow 2021-01-29 09:41:24 +01:00
kevinmenden
0780155dc4 added cutadapt module and tests 2021-01-29 09:33:45 +01:00
kevinmenden
3390f7621d removed should_exist tag 2021-01-27 16:32:04 +01:00
kevinmenden
48c570d6ac added file exist to test.yml 2021-01-27 08:56:25 +01:00
kevinmenden
3750bea2dd fixed typo 2021-01-26 16:18:46 +01:00
kevinmenden
a3185732ff added meta.yml files 2021-01-26 16:12:41 +01:00
kevinmenden
431a2eb73b added quant test workflow 2021-01-26 15:58:22 +01:00
kevinmenden
915e0574a2 added salmon index test workflow 2021-01-26 15:44:22 +01:00
kevinmenden
81bcf0da82 added test.yml and md5sums 2021-01-26 15:38:56 +01:00
kevinmenden
8d4b71355e added test data and salmon tests 2021-01-26 15:24:06 +01:00
Harshil Patel
3ef16b7cfd
Merge pull request #121 from KevinMenden/master 
Adding test for STAR
 2021-01-26 13:01:27 +00:00
kevinmenden
84355f674d added optional output files 2021-01-26 13:31:30 +01:00
Kevin Menden
8e2749beb7
Apply suggestions from code review 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-26 12:46:30 +01:00
kevinmenden
5be1598b29 remove log.progress.out from test 2021-01-25 15:21:48 +01:00
kevinmenden
272de7c021 Added meta.yml files for align and genomegenerate 2021-01-25 15:14:57 +01:00
kevinmenden
046444a736 added workflow files 2021-01-25 15:00:51 +01:00
kevinmenden
a1e1e27f67 updated test md5sums 2021-01-25 15:00:18 +01:00
kevinmenden
71e0de733c adapdted star for mutliple output BAMs 2021-01-25 14:09:03 +01:00
kevinmenden
6444af7b36 star module tests 2021-01-25 09:02:03 +01:00
Michael L Heuer
e6547d5b16 Update dsh-bio version to 2.0 2021-01-22 12:12:56 -06:00
kevinmenden
f58c1c1e9e added star genomegenerate test 2021-01-22 14:01:59 +01:00
Michael L Heuer
23f9284aae Added dsh-bio split-bed as dsh_splitbed 2021-01-21 16:34:49 -06:00
Michael L Heuer
eb6408f3dc Added dsh-bio filter-bed as dsh_filterbed 2021-01-21 15:16:20 -06:00
Edmund Miller
daa25b9329
Merge branch 'preseq_test' 2021-01-15 17:41:13 -06:00
Edmund Miller
86850dc8a4 style: Remove old comment 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 10:32:20 -06:00
Edmund Miller
4f0c34bbfb ci: Bump nextflow version 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 10:32:20 -06:00
sruthipsuresh
7729fee5a9 Added gffread and gff3 file for testing 2021-01-15 10:32:20 -06:00
Edmund Miller
d7a78fa127 style: Fix indent 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 10:28:11 -06:00
sruthipsuresh
b95bd37780 Added ucsc module 2021-01-15 10:28:11 -06:00
Harshil Patel
27dbe8b52a
Merge pull request #115 from Functional-Genomics-Lab/stringtie_test 
Added testing for Stringtie
 2021-01-15 16:09:39 +00:00
Edmund Miller
53830e05c7
test: Fix typo 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 10:07:44 -06:00
Edmund Miller
fe39c7822f
style: Fix indentation 2021-01-15 10:01:02 -06:00
Edmund Miller
b9e8f959b3
style: Standardize process names 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 10:00:40 -06:00
Edmund Miller
a3ca757f4e Update .github/workflows/phantompeakqualtools.yml 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 09:38:13 -06:00
sruthipsuresh
ec91171152 Corrected naming to ensure test checks work 2021-01-15 09:38:13 -06:00
sruthipsuresh
5a1c1f90e5 removed md5sums for pdf, rdata 2021-01-15 09:38:13 -06:00
sruthipsuresh
3f814d1e2f Workflow and md5sums added 2021-01-15 09:38:13 -06:00
sruthipsuresh
269d9888fe Corrected bash error, tested process 2021-01-15 09:38:13 -06:00
Sruthi Suresh
b7435b0159 added test file for phantompeakqualtools for testing 2021-01-15 09:38:13 -06:00
sruthipsuresh
09d56efe12 Fixed with mr file for size issues 2021-01-14 02:12:57 -06:00
sruthipsuresh
00ef1d3863
Changed input to bed files 2021-01-15 16:52:17 -06:00
Edmund Miller
4181a7356c
Remove -bam flag 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-01-15 09:39:32 -06:00
sruthipsuresh
2d2f15af0f
Delete phantompeakqualtools.yml 2021-01-13 21:23:24 -06:00
sruthipsuresh
a66618be98
Delete tests/software/phantompeakqualtools directory 2021-01-13 21:23:02 -06:00
sruthipsuresh
6f3cbfcd9a Fixed test.yml 2021-01-12 18:14:28 -06:00
sruthipsuresh
b297f7aea1 Fixed test and removed phantompeak tests 2021-01-12 18:04:12 -06:00
sruthipsuresh
7c88cf4f67 Finished module with md5sums 2021-01-12 09:29:31 -06:00
sruthipsuresh
0a04c96357 Added module, TODO data 2021-01-12 09:13:37 -06:00
sruthipsuresh
3b581d1912 Updated test.yml 2021-01-12 08:56:11 -06:00