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Katarzyna Sikora committed Feb 27, 2018
1 parent 5bad4bc commit 182866a
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion BS_DMR_WGBS.py~
Original file line number Diff line number Diff line change
Expand Up @@ -39,7 +39,7 @@ def DMR_metilene(ii,sampleInfo,outfile,nthreads,metipath,my_session,logobject):


def clean_up_metilene(metilene_out,CpG_stats_out,sampleInfo,outdir,my_session,logobject):
cmd='/package/R-3.3.1/bin/Rscript --no-save --no-restore /data/manke/repository/scripts/DNA_methylation/WGBS_pipe/dev/WGBSpipe.metilene_stats.limma.R ' + outdir + ' ' + metilene_out + ' ' + CpG_stats_out +' ' + sampleInfo
cmd='/package/R-3.3.1/bin/Rscript --no-save --no-restore /data/manke/repository/scripts/DNA_methylation/WGBS_pipe/v1.0.0/WGBSpipe.metilene_stats.limma.R ' + outdir + ' ' + metilene_out + ' ' + CpG_stats_out +' ' + sampleInfo
logobject.info(cmd)
with open(os.path.join(outdir,"logs","metilene.cleanup.out" ),'w') as stdoutF, open(os.path.join(outdir,"logs","metilene.cleanup.err"),'w') as stderrF:
try:
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