# Query job status status = appServicePort.queryStatus(queryStatusRequest(jobID)) # If execution is successful retrieve job outputs. if status._code == 8: # 8 = GramJob.STATUS_DONE # Create local directory to hold output files output_dir = 'meme_out' mkdir(output_dir); # Instantiate a collection of outputs outputs = appServicePort.getOutputs(getOutputsRequest(jobID)) # Instantiate a request object for retrieving output files fileRequest = getOutputAsBase64ByNameRequest() # Retreive each output file and save to local directory. # MEME writes stdout and stderr to files that aren't listed # in the response, so we handle those separately. print "\tStandard Output:", outputs._stdOut localOutput = open(output_dir + '/' + "stdout.txt", "w") fileRequest._jobID = jobID fileRequest._fileName = "stdout.txt" content = appServicePort.getOutputAsBase64ByName(fileRequest) print >>localOutput, content localOutput.close() print "\tStandard Error:", outputs._stdErr localOutput = open(output_dir + '/' + "stderr.txt", "w") fileRequest._jobID = jobID fileRequest._fileName = "stderr.txt"
sleep(30)
# Query job status
status = appServicePort.queryStatus(queryStatusRequest(jobID))
if status._code == 8: # 8 = GramJob.STATUS_DONE
# Create local directory to hold output files
output_dir = 'fimo_out'
mkdir(output_dir)
# Find out what outputs were generated by the job
outputs = appServicePort.getOutputs(getOutputsRequest(jobID))
# Instantiate a request object for reteiving output files
req = getOutputAsBase64ByNameRequest()
# Retreive each output file and save to local directory.
# MEME writes stdout and stderr to files that aren't listed
# in the response, so we handle those separately.
print "\tStandard Output:", outputs._stdOut
output = open(output_dir + '/' + "stdout.txt", "w")
req._jobID = resp._jobID
req._fileName = "stdout.txt"
content = appServicePort.getOutputAsBase64ByName(req)
print >> output, content
output.close()
print "\tStandard Error:", outputs._stdErr
output = open(output_dir + '/' + "stderr.txt", "w")
req._jobID = jobID
req._fileName = "stderr.txt"
# Query job status
status = appServicePort.queryStatus(queryStatusRequest(jobID))
# If execution is successful retrieve job outputs.
if status._code == 8: # 8 = GramJob.STATUS_DONE
# Create local directory to hold output files
output_dir = "meme_out"
mkdir(output_dir)
# Instantiate a collection of outputs
outputs = appServicePort.getOutputs(getOutputsRequest(jobID))
# Instantiate a request object for retrieving output files
fileRequest = getOutputAsBase64ByNameRequest()
# Retreive each output file and save to local directory.
# MEME writes stdout and stderr to files that aren't listed
# in the response, so we handle those separately.
print "\tStandard Output:", outputs._stdOut
localOutput = open(output_dir + "/" + "stdout.txt", "w")
fileRequest._jobID = jobID
fileRequest._fileName = "stdout.txt"
content = appServicePort.getOutputAsBase64ByName(fileRequest)
print >> localOutput, content
localOutput.close()
print "\tStandard Error:", outputs._stdErr
localOutput = open(output_dir + "/" + "stderr.txt", "w")
fileRequest._jobID = jobID
fileRequest._fileName = "stderr.txt"
# Retrieve job outputs, if execution is successful
if status._code == 8: # 8 = GramJob.STATUS_DONE
print "Retrieving Babel output metadata: "
resp = appServicePort.getOutputs(getOutputsRequest(jobID))
# Retrieve a listing of all output files
print "\tStandard Output:", resp._stdOut, "\n", \
"\tStandard Error:", resp._stdErr
if (resp._outputFile != None):
for i in range(0, resp._outputFile.__len__()):
print "\t" + resp._outputFile[i]._name, ":", resp._outputFile[i]._url
# Retrieve an output file as a Base64 encoded binary
print "Downloading Babel output: "
req = getOutputAsBase64ByNameRequest()
req._jobID = jobID
req._fileName = "stdout.txt"
resp = appServicePort.getOutputAsBase64ByName(req)
print resp
# Set up blocking job launch
req = launchJobBlockingRequest()
req._argList = "-ipdb benzene.pdb -h -opdb output.pdb"
inputFiles = []
inputFile = ns0.InputFileType_Def('inputFile')
inputFile._name = 'benzene.pdb'
sampleFile = open("./etc/benzene.pdb", "r")
sampleFileString = sampleFile.read()
sampleFile.close()
inputFile._contents = sampleFileString
