comparison startXena.py @ 0:0676a227dbc6

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0:0676a227dbc6

#!/usr/bin/env python

import argparse
import os
import subprocess
import sys

def stop_err(msg, fp, error_level=1):
   """Print error message to stdout and quit with given error level."""
   #sys.stderr.write("%s\n" % msg)
   fp.write("%s\n" % msg)
   fp.write("error code %d\n" % error_level)
   sys.exit(error_level)

    
def run(cmd, fp):
    #Avoid using shell=True when we call subprocess to ensure if the Python
    #script is killed, so too is the child process.
    try:
        child = subprocess.Popen(cmd, stdout=subprocess.PIPE, 
                                 stderr=subprocess.PIPE, shell=True)
    except Exception, err:
        stop_err("Error invoking command:\n%s\n\n%s\n" % (" ".join(cmd), err))
    #Use .communicate as can get deadlocks with .wait(),
    stdout, stderr = child.communicate()
    return_code = child.returncode
    if return_code:
        if stderr and stdout:
            stop_err("Return code %i from command:\n%s\n\n%s\n\n%s" % (return_code, err, stdout, stderr), fp)
        else:
            stop_err("Return code %i from command:\n%s\n%s" % (return_code, err, stderr), fp)



def main():
    jarPath = os.getenv("JAVA_JAR_PATH", "~")
    xenaBaseDir = os.getenv("XENA_BASE_DIR", "~")
    xenaJarPath = os.path.join(jarPath, "xena.jar")
    xenaBaseDir = os.getenv("XENA_BASE_DIR", "~")
    cmdline = "java -jar %s -r %s/xena/files -d %s/xena/db -t %s/xena/tmp" % (xenaJarPath, xenaBaseDir, xenaBaseDir, xenaBaseDir)
    for ii in range(1,len(sys.argv)):
        cmdline = "%s %s" % (cmdline, sys.argv[ii])
    print "executing", cmdline
    fp = open("/inside/home/cline/tmp/xena.out", "w")
    fp.write("jar path (not paht) %s\n" % (jarPath))
    fp.write("xena base dir %s\n" % (xenaBaseDir))
    fp.write(cmdline)
    run(cmdline, fp)
    fp.close()

if __name__ == '__main__':
    main( )