bashCoat.py
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	#!/usr/bin/env python

	import run
	import os,stat
	import subprocess
	import re
	import socket


	admissible_params = {"stdout":None}
	#default_params = {}
	help = {"stdout":"Specify if you want the standard output instead of a file"}


	def launch(run, params):

	_exec = run.getExecFile()
	head = \
	"""#!/bin/bash
	export BLACKDYNAMITE_HOST=__BLACKDYNAMITE__dbhost__
	export BLACKDYNAMITE_SCHEMA=__BLACKDYNAMITE__study__
	export BLACKDYNAMITE_RUN_ID=__BLACKDYNAMITE__run_id__
	export BLACKDYNAMITE_USER=$USER

	"""

	_exec["file"] = run.replaceBlackDynamiteVariables(head) + _exec["file"]
	f = open(_exec["filename"], 'w')
	f.write(_exec["file"])
	f.close()
	os.chmod(_exec["filename"], stat.S_IRWXU)
	print ("execute ./" + _exec["filename"])
	if (params["truerun"]):
	run["state"] = "launched"
	run.update()
	run.commit()
	filename = run["run_name"] + ".o" + str(run.id)
	filename_err = run["run_name"] + ".e" + str(run.id)
	with open(filename, "w") as outfile:
	with open(filename_err, "w") as errfile:
	ret = subprocess.call("./" + _exec["filename"], stdout=outfile, stderr=errfile)