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comparison trinityToolWrapper.py @ 8:28f6d3b8e931 draft

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Adjusting requirements.
author trinity_ctat
date Tue, 26 Sep 2017 14:54:33 -0400
parents 78d12a725443
children b6152cc26ffd
comparison
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7:78d12a725443 8:28f6d3b8e931
22 # I tried using "command -v Trinity" but for some reason, I was getting a OS permission error with that. 22 # I tried using "command -v Trinity" but for some reason, I was getting a OS permission error with that.
23 # I just found distutils.spawn.find_executable() which might work, but already implemented the below. 23 # I just found distutils.spawn.find_executable() which might work, but already implemented the below.
24 try: 24 try:
25 pipe1 = subprocess.Popen(["which", "Trinity"], stdout=subprocess.PIPE) 25 pipe1 = subprocess.Popen(["which", "Trinity"], stdout=subprocess.PIPE)
26 except: 26 except:
27 msg = "You must set the environmental variable TRINITY_HOME to the base installation directory of Trinity before running {:s}.".format(sys.argv[0])
28 sys.stderr.write(msg)
27 t, v, tb = sys.exc_info() 29 t, v, tb = sys.exc_info()
28 sys.stderr.write("You must set the environmental variable TRINITY_HOME to the base installation directory of Trinity before running {:s}.".format(sys.argv[0]))
29 raise t, v, tb 30 raise t, v, tb
30 else: 31 else:
31 TrinityPath, err_info = pipe1.communicate() 32 TrinityPath, err_info = pipe1.communicate()
32 # FIX - probably should be checking err_info for errors... 33 # FIX - probably should be checking err_info for errors...
33 # Determine the TRINITY_BASE_DIR from output1. 34 # Determine the TRINITY_BASE_DIR from output1.