# Python script for programmatic execution of the AF workflow
# (and consequent publishing of UnivColoLungImages)
from gov.nasa.jpl.edrn.labcas.labcas_client import LabcasClient
if __name__ == '__main__':
# upload these datasets
#dataset_names = ['UCHSC_1467', 'UCHSC_8798']
#dataset_names = ['UCHSC_1467']
dataset_names = ['UCHSC_8798']
product_type = 'University_of_Colorado_Lung_Image'
for dataset_name in dataset_names:
# submit workflow
# ./wmgr-client --url http://localhost:9001 --operation --sendEvent --eventName waf --metaData --key DatasetId UCHSC_1001
labcasClient = LabcasClient()
wInstId = labcasClient.executeWorkflow(['urn:edrn:WafInitTask',
'urn:edrn:WafCrawlTask'],
{ 'DatasetName':dataset_name },
)
# monitor workflow instance
labcasClient.waitForCompletion(wInstId)
# list all products for given product type
labcasClient.listProducts(product_type)
# --key DataCollectionDate 20160101 --key SampleProcessingProtocols 'With water and ammonia'
# --key InstrumentationTechnologyCode NGS --key Manufacturer TexasInstruments
# --key ModelNumber XYZ123 --key DataProcessingProtocols 'Crunching data'
# --key OwnerGroup Lab005_OwnerPrincipal
labcasClient = LabcasClient()
workflowTasks = ['urn:edrn:NistInitTask',
'urn:edrn:NistConvertTask',
'urn:edrn:NistExecTask',
'urn:edrn:NistCrawlTask']
metadata = {'DatasetName':'Lab005_C_R03',
'LabNumber':'005',
'Method':'C',
'RoundNumber':'003',
'LeadPI':'Johns',
'DataCollectionDate':'20160101',
'NewVersion':'false' }
# upload dataset without changing the version
wInstId = labcasClient.executeWorkflow(workflowTasks, metadata)
# monitor workflow instance
labcasClient.waitForCompletion(wInstId)
# upload new version of same dataset, fix MetaData
metadata['NewVersion']='true'
metadata['LeadPI']='Smith'
wInstId = labcasClient.executeWorkflow(workflowTasks, metadata)
# monitor workflow instance
labcasClient.waitForCompletion(wInstId)
# Example script to execute the "labcas-test" workflow
from gov.nasa.jpl.edrn.labcas.labcas_client import LabcasClient
if __name__ == '__main__':
# submit workflow
# ./wmgr-client --url http://localhost:9001 --operation --sendEvent --eventName labcas-test --metaData --key experiment 11 --key species snakes
labcasClient = LabcasClient()
wInstId = labcasClient.executeWorkflow(['urn:edrn:LabcasTestInit','urn:edrn:LabcasTestTask'],
{'experiment':'11',
'species':'snakes' } )
# monitor workflow instance
labcasClient.waitForCompletion(wInstId)
# list all files of this product type
labcasClient.listProducts('LabCAS_Test_Product')
