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remove stop_err

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This commit is contained in:
Björn Grüning
2020-10-13 09:55:36 +02:00
committed by GitHub
parent eb13388ee6
commit 1e428e53fa
1 changed files with 4 additions and 7 deletions
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tools/sr_assembly/velveth_wrapper.py
+4 -7
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@@ -10,11 +10,6 @@ import sys
assert sys.version_info[:2] >= (2, 4)
def stop_err(msg):
sys.stderr.write("%s\n" % msg)
sys.exit()
def __main__():
# Parse command line
html_file = sys.argv[1]
@@ -22,7 +17,8 @@ def __main__():
try: # for test - needs this done
os.makedirs(working_dir)
except Exception as e:
stop_err('Error running velveth ' + str(e))
sys.exit('Error running velveth ' + str(e))
hash_length = sys.argv[3]
inputs = ' '.join(sys.argv[4:])
cmdline = 'velveth %s %s %s > /dev/null' % (working_dir, hash_length, inputs)
@@ -42,7 +38,8 @@ def __main__():
if returncode != 0:
raise Exception(stderr)
except Exception as e:
stop_err('Error running velveth ' + str(e))
sys.exit('Error running velveth ' + str(e))
sequences_path = os.path.join(working_dir, 'Sequences')
roadmaps_path = os.path.join(working_dir, 'Roadmaps')
rval = ['<html><head><title>Velvet Galaxy Composite Dataset </title></head><p/>']