for log_handler in validator_logger.handlers:
log_handler.close()
validator_logger.handlers = []
# Depending on validation results, load the study or notify the user
try:
print "\n"
print >> sys.stderr, "#" * 71
if exitcode == 1:
print >> sys.stderr, Color.RED + "One or more errors reported above. Please fix your files accordingly" + Color.END
print >> sys.stderr, "!" * 71
elif exitcode == 3:
if args.override_warning:
print >> sys.stderr, Color.BOLD + "Overriding Warnings. Importing study now" + Color.END
print >> sys.stderr, "#" * 71 + "\n"
cbioportalImporter.main(args)
exitcode = 0
else:
print >> sys.stderr, Color.BOLD + "Warnings. Please fix your files or import with override warning option" + Color.END
print >> sys.stderr, "#" * 71
elif exitcode == 0:
print >> sys.stderr, Color.BOLD + "Everything looks good. Importing study now" + Color.END
print >> sys.stderr, "#" * 71 + "\n"
cbioportalImporter.main(args)
except KeyboardInterrupt:
print >> sys.stderr, Color.BOLD + "\nProcess interrupted. You will have to run this again to make sure study is completely loaded." + Color.END
print >> sys.stderr, "#" * 71
raise
except:
print >> sys.stderr, "!" * 71
print >> sys.stderr, Color.RED + "Error occurred during data loading step. Please fix the problem and run this again to make sure study is completely loaded." + Color.END
for log_handler in validator_logger.handlers:
log_handler.close()
validator_logger.handlers = []
# Depending on validation results, load the study or notify the user
try:
print "\n"
print >> sys.stderr, "#" * 71
if exitcode == 1:
print >> sys.stderr, Color.RED + "One or more errors reported above. Please fix your files accordingly" + Color.END
print >> sys.stderr, "!" * 71
elif exitcode == 3:
if args.override_warning:
print >> sys.stderr, Color.BOLD + "Overriding Warnings. Importing study now" + Color.END
print >> sys.stderr, "#" * 71 + "\n"
cbioportalImporter.main(args)
else:
print >> sys.stderr, Color.BOLD + "Warnings. Please fix your files or import with override warning option" + Color.END
print >> sys.stderr, "#" * 71
elif exitcode == 0:
print >> sys.stderr, Color.BOLD + "Everything looks good. Importing study now" + Color.END
print >> sys.stderr, "#" * 71 + "\n"
cbioportalImporter.main(args)
except KeyboardInterrupt:
print >> sys.stderr, Color.BOLD + "\nProcess interrupted. You will have to run this again to make sure study is completely loaded." + Color.END
print >> sys.stderr, "#" * 71
raise
except:
print >> sys.stderr, "!" * 71
print >> sys.stderr, Color.RED + "Error occurred during data loading step. Please fix the problem and run this again to make sure study is completely loaded." + Color.END
raise