comparison tools/protein_analysis/wolf_psort.py @ 6:a290c6d4e658

Migrated tool version 0.0.9 from old tool shed archive to new tool shed repository

5:0f1c61998b22

FASTA_CHUNK = 500
exe = "runWolfPsortSummary"

"""
Note: I had trouble getting runWolfPsortSummary on the path, so used a wrapper
python script called runWolfPsortSummary as follows:

#!/usr/bin/env python
#Wrapper script to call WoLF PSORT from its own directory.
import os

try:
   num_threads = int(sys.argv[2])
except:
   num_threads = 0
if num_threads < 1:
   stop_err("Threads argument %s is not a positive integer" % sys.argv[3])

fasta_file = sys.argv[3]

tabular_file = sys.argv[4]

6:a290c6d4e658

FASTA_CHUNK = 500
exe = "runWolfPsortSummary"

"""
Note: I had trouble getting runWolfPsortSummary on the path (via a link, other
than by including all of /opt/WoLFPSORT_package_v0.2/bin , so used a wrapper
python script called runWolfPsortSummary as follows:

#!/usr/bin/env python
#Wrapper script to call WoLF PSORT from its own directory.
import os

try:
   num_threads = int(sys.argv[2])
except:
   num_threads = 0
if num_threads < 1:
   stop_err("Threads argument %s is not a positive integer" % sys.argv[2])

fasta_file = sys.argv[3]

tabular_file = sys.argv[4]