def trigger_auto_processing(
self,
process_event,
xds_dir,
EDNA_files_dir=None,
anomalous=None,
residues=200,
do_inducedraddam=False,
spacegroup=None,
cell=None,
):
# quick fix for anomalous, do_inducedraddam... passed as a string!!!
# (comes from the queue)
if isinstance(anomalous, types.StringType):
anomalous = anomalous == "True"
if isinstance(do_inducedraddam, types.StringType):
do_inducedraddam = do_inducedraddam == "True"
if isinstance(residues, types.StringType):
try:
residues = int(residues)
except BaseException:
residues = 200
# residues = zero should be interpreted as if no value was provided
# use default of 200
if residues == 0:
residues = 200
processAnalyseParams = {}
processAnalyseParams["EDNA_files_dir"] = EDNA_files_dir
try:
if isinstance(xds_dir, types.ListType):
processAnalyseParams["collections_params"] = xds_dir
else:
processAnalyseParams["datacollect_id"] = self.collection_id
processAnalyseParams["xds_dir"] = xds_dir
processAnalyseParams["anomalous"] = anomalous
processAnalyseParams["residues"] = residues
processAnalyseParams["spacegroup"] = spacegroup
processAnalyseParams["cell"] = cell
except Exception as msg:
logging.getLogger().exception("DataCollect:processing: %r" % str(msg))
else:
# logging.info("AUTO PROCESSING: %s, %s, %s, %s, %s, %s, %r, %r", process_event, EDNA_files_dir, anomalous, residues, do_inducedraddam, spacegroup, cell)
try:
autoprocessing.start(
self["auto_processing"], process_event, processAnalyseParams
)
except BaseException:
logging.getLogger().exception("Error starting processing")
if process_event == "after" and do_inducedraddam:
try:
autoprocessing.startInducedRadDam(processAnalyseParams)
except BaseException:
logging.exception("Error starting induced rad.dam")
def trigger_auto_processing(self, process_event, xds_dir, EDNA_files_dir=None, anomalous=None, residues=200, do_inducedraddam=False, spacegroup=None, cell=None):
# quick fix for anomalous, do_inducedraddam... passed as a string!!!
# (comes from the queue)
if type(anomalous) == types.StringType:
anomalous = anomalous == "True"
if type(do_inducedraddam) == types.StringType:
do_inducedraddam = do_inducedraddam == "True"
if type(residues) == types.StringType:
try:
residues = int(residues)
except:
residues = 200
# residues = zero should be interpreted as if no value was provided
# use default of 200
if residues == 0:
residues = 200
processAnalyseParams = {}
processAnalyseParams['EDNA_files_dir'] = EDNA_files_dir
try:
if type(xds_dir) == types.ListType:
processAnalyseParams["collections_params"] = xds_dir
else:
processAnalyseParams['datacollect_id'] = self.collection_id
processAnalyseParams['xds_dir'] = xds_dir
processAnalyseParams['anomalous'] = anomalous
processAnalyseParams['residues'] = residues
processAnalyseParams["spacegroup"]=spacegroup
processAnalyseParams["cell"]=cell
except Exception as msg:
logging.getLogger().exception("DataCollect:processing: %r" % str(msg))
else:
#logging.info("AUTO PROCESSING: %s, %s, %s, %s, %s, %s, %r, %r", process_event, EDNA_files_dir, anomalous, residues, do_inducedraddam, spacegroup, cell)
try:
autoprocessing.start(self["auto_processing"], process_event, processAnalyseParams)
except:
logging.getLogger().exception("Error starting processing")
if process_event=="after" and do_inducedraddam:
try:
autoprocessing.startInducedRadDam(processAnalyseParams)
except:
logging.exception("Error starting induced rad.dam")
processAnalyseParams["anomalous"] = anomalous
processAnalyseParams["residues"] = residues
processAnalyseParams["inverse_beam"] = inverse_beam
processAnalyseParams["spacegroup"] = spacegroup
processAnalyseParams["cell"] = cell
except Exception, msg:
logging.getLogger().exception("DataCollect:processing: %r" % msg)
else:
logging.info(
"AUTO PROCESSING: %s, %s, %s, %s, %s, %s, %r, %r",
process_event,
EDNA_files_dir,
anomalous,
residues,
inverse_beam,
do_inducedraddam,
spacegroup,
cell,
)
try:
autoprocessing.start(self["auto_processing"], process_event, processAnalyseParams)
except:
logging.getLogger().exception("Error starting processing")
if process_event == "after" and do_inducedraddam:
try:
autoprocessing.startInducedRadDam(processAnalyseParams)
except:
logging.exception("Error starting induced rad.dam")
try:
if type(xds_dir) == types.ListType:
processAnalyseParams["collections_params"] = xds_dir
else:
processAnalyseParams['datacollect_id'] = self.collection_id
processAnalyseParams['xds_dir'] = xds_dir
processAnalyseParams['anomalous'] = anomalous
processAnalyseParams['residues'] = residues
processAnalyseParams['inverse_beam'] = inverse_beam
processAnalyseParams["spacegroup"] = spacegroup
processAnalyseParams["cell"] = cell
except Exception, msg:
logging.getLogger().exception("DataCollect:processing: %r" % msg)
else:
logging.info("AUTO PROCESSING: %s, %s, %s, %s, %s, %s, %r, %r",
process_event, EDNA_files_dir, anomalous, residues,
inverse_beam, do_inducedraddam, spacegroup, cell)
try:
autoprocessing.start(self["auto_processing"], process_event,
processAnalyseParams)
except:
logging.getLogger().exception("Error starting processing")
if process_event == "after" and do_inducedraddam:
try:
autoprocessing.startInducedRadDam(processAnalyseParams)
except:
logging.exception("Error starting induced rad.dam")
