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")