5 commits

Author	SHA1	Message	Date
Harshil Patel	e937c7950a	Rename software/ directory to modules/ to re-organise module structure (#567) ... * Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml	2021-07-07 10:10:18 +01:00
Kevin Menden	043a7d1e3c	remove deprecated test tags (#440) ... * remove deprecated test tags * fix bowtie, gatk4/applybsqr * fix gatk4 baserecalibrator * fixed shovill * fixed yara/mapper * fixed kallistobustools/ref paths	2021-04-13 18:03:09 +01:00
Harshil Patel	242fdb2f73	Version bumps and minor module updates (#406) ... * Version bumps and minor module updates * Fix Pangolin tests * Fix SPAdes tests * stageAs @phue	2021-04-06 13:38:41 +01:00
Jose Espinosa-Carrasco	f8e428d690	Restructuring spades tests whith new test data sets + fixing spades tests (#396) ... * Restructuring with new test data sets + fixing tests * Remove checkings for warning files * Remove md5 check for test.gene_clusters.fa Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2021-04-01 20:31:23 +01:00
Jose Espinosa-Carrasco	72e81d6e90	Add spades module (#277) ... * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2021-03-18 13:48:38 +00:00