def run(self, info):
#write ini for workflow, contains BASEDIR + JOBID
pipeline_info = info.copy()
path = os.path.join(pipeline_info["WORKDIR"], "input.ini")
IniInfoHandler().write(info, path)
#run workflow
os.chdir(pipeline_info['BASEDIR'])
pipeline_run([merge], multiprocess=int(pipeline_info[Keys.THREADS]))
#parse "important information"
pipeline_info = IniInfoHandler().read("merged.ini_0")
pipeline_info['BASEDIR'] = info['BASEDIR']
info = pipeline_info
logging.debug(
"NOW THIS IS THE REAL RESULT. I FETCHED FROM SUBWORKFLOW %s" %
info['COPY'])
return info
def run(self,log, info):
ih = IniInfoHandler()
ih.write(info,"input.ini")
run_pepprot_WF()
info = ih.read("protprophet.ini")
return info
def run(self,log, info):
ih = IniInfoHandler()
ih.write(info,"pepinput.ini")
run_peptide_WF()
info = ih.read("convert2csv.ini")
return info
