def get_expression_from_run( run_id, pathway, by_rank ):
res = RunGPUDiracModel.get( run_id, timestamp )
config = json.loads(base64.b64decode( res.config ))
net_table = config['network_config']['network_table']
net_source_id = config['network_config']['network_source']
source_dataframe = config['dest_data']['dataframe_file']
metadata_file = config['dest_data']['meta_file']
source_bucket = config['dest_data']['working_bucket']
app_path = '/home/sgeadmin/.local/lib/python2.7/site-packages/tcdiracweb-0.1.0-py2.7.egg/tcdiracweb'
data_path = 'static/data'
args = (net_table, net_source_id, source_dataframe, metadata_file,
app_path, source_bucket, data_path)
tsv = TSVGen( * args )
return t.genNetworkGeneExpTables( pathway, by_rank=by_rank )
def dumpExpression():
runs = {}
ignore = ['black_6_go_wt_v_q111']
for item in RunGPUDiracModel.scan():
if item.run_id not in ignore:
runs[item.run_id] = json.loads(base64.b64decode( item.config ))
for k in runs.keys():
net_table = runs[k]['network_config']['network_table']
net_source_id = runs[k]['network_config']['network_source']
source_dataframe = runs[k]['dest_data']['dataframe_file']
metadata_file = runs[k]['dest_data']['meta_file']
source_bucket = runs[k]['dest_data']['working_bucket']
app_path = '/home/sgeadmin/.local/lib/python2.7/site-packages/tcdiracweb-0.1.0-py2.7.egg/tcdiracweb'
data_path = 'static/data'
runs['tsvargs'] = (net_table, net_source_id, source_dataframe, metadata_file, app_path, source_bucket, data_path)
runs['sig_nets'] = get_sig(k)
t = TSVGen( *runs['tsvargs'] )
for pw in runs['sig_nets']:
for rank in [True,False]:
for j in [True,False]:
print t.genNetworkGeneExpTables(pw, by_rank=rank)
return
print pw
