def SIGINT_handler(signal, frame):
if args.single_host:
print 'EXITING with return code 1!'
else:
print 'EXITING with return code 1! Killing qsub jobs:'
for jobID in job_ids.values():
o,e = deleteQSub(jobID)
print o
if gui:
curses.endwin()
sys.exit(1)
f_summary.write("Source\t" + str(statsData["ventreadcnt"]["desc"]) + "\t" + str(statsData["mappedreadcnt"]["desc"]) + "\t" +str(statsData["sinkmappingcnt"]["desc"]) + "\t" + str(statsData["totalmappings"]["desc"]) + "\n")
f_summary.write(source_filename + "\t" + str(statsData["ventreadcnt"]["value"]) + "\t" + str(statsData["mappedreadcnt"]["value"]) + "\t" +str(statsData["sinkmappingcnt"]["value"]) + "\t" + str(statsData["totalmappings"]["value"]) + "\n")
f_summary.close()
updateMessages(msgHistory, msgScreen, f_log, logLevel, "FINISHED. Terminating all mapping jobs and ventilator.")
if args.single_host:
# stop the mappers
print job_ids
for jid in job_ids["mappers"]:
os.kill(int(jid), signal.SIGINT)
# stop the vent
os.kill(int(job_ids["vent"]), signal.SIGINT)
# wait for sink to finish
os.waitpid(int(job_ids["sink"]), 0)
else:
o,e = deleteQSub(job_ids["mappers"])
o,e = deleteQSub(job_ids["vent"])
if gui:
curses.endwin()
time.sleep(10)
sys.exit(0)
elif sender == 'ERROR':
quitController("ERROR [" + sampleID + "] " + message, logDirectory, job_ids, f_log, f_summary,f_univerror, f_contigs, gui, args.single_host)
elif sender == 'WARNING':
updateMessages(msgHistory, msgScreen, f_log, logLevel, "[WARNING]" + message)
socket.send("ok")
else:
print "unkown sender", message
