def process(self, _edObject = None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlRunXdsFastProc.process")
        # First run is vanilla without any modification
        params = XSDataMinimalXdsIn()
        params.input_file = self.dataInput.input_file
        params.spacegroup = self.dataInput.spacegroup
        params.unit_cell = self.dataInput.unit_cell
        self.first_run.dataInput = params
        self.first_run.executeSynchronous()

        EDVerbose.DEBUG('first run completed...')

        if self.first_run.dataOutput is not None and self.first_run.dataOutput.succeeded.value:
            EDVerbose.DEBUG('... and it worked')
            self.successful_run = self.first_run
        else:
            EDVerbose.DEBUG('... and it failed')


        if not self.successful_run:
            self.second_run = self.loadPlugin(self.controlled_plugin_name)
            self.DEBUG('retrying with increased SPOT_RANGE')
            self.DEBUG('copying previously generated files to the new plugin dir')
            copy_xds_files(self.first_run.getWorkingDirectory(),
                           self.second_run.getWorkingDirectory())
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.job = XSDataString('DEFPIX INTEGRATE CORRECT')
            params.spacegroup = self.dataInput.spacegroup
            params.unit_cell = self.dataInput.unit_cell

            # increase all the spot ranges end by 20, constrained to
            # the data range upper limit
            spot_range = list()
            for srange in self.spot_range:
                range_begin = srange[0]
                range_end = srange[1] + 20
                if range_end > self.end_image_no:
                    self.DEBUG('End of range {0} would be past the last image {1}'.format(range_end,
                                                                                          self.end_image_no))
                    range_end = self.end_image_no
                self.DEBUG('Changing spot range {0} to [{1} {2}]'.format(srange, range_begin, range_end))
                r = XSDataRange(begin=range_begin, end=range_end)
                spot_range.append(r)

            params.spot_range = spot_range

            self.second_run.dataInput = params
            self.second_run.executeSynchronous()

            EDVerbose.DEBUG('second run completed')
            if self.second_run.dataOutput is not None and self.second_run.dataOutput.succeeded.value:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.second_run
            else:
                EDVerbose.DEBUG('... and it failed')


        if not self.successful_run:
            self.third_run = self.loadPlugin(self.controlled_plugin_name)
            self.DEBUG('retrying with increased SPOT_RANGE')
            self.DEBUG('copying previously generated files to the new plugin dir')
            copy_xds_files(self.second_run.getWorkingDirectory(),
                           self.third_run.getWorkingDirectory())
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.job = XSDataString('DEFPIX INTEGRATE CORRECT')
            params.spacegroup = self.dataInput.spacegroup
            params.unit_cell = self.dataInput.unit_cell
            spot_range = list()
            for srange in self.spot_range:
                range_begin = srange[0]
                range_end = srange[1] + 40
                if range_end > self.end_image_no:
                    self.DEBUG('End of range {0} would be past the last image {1}'.format(range_end,
                                                                                          self.end_image_no))
                    range_end = self.end_image_no
                self.DEBUG('Changing spot range {0} to [{1} {2}]'.format(srange, range_begin, range_end))
                r = XSDataRange(begin=range_begin, end=range_end)
                spot_range.append(r)

            params.spot_range = spot_range

            self.third_run.dataInput = params
            self.third_run.executeSynchronous()

            EDVerbose.DEBUG('third run completed')
            if self.third_run.dataOutput is not None and self.third_run.dataOutput.succeeded.value:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.third_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
        # all runs failed so bail out ...
            self.setFailure()
        else:
            # use the xds parser plugin to parse the xds output file...
            parser = self.loadPlugin("EDPluginParseXdsOutput")
            wd = self.successful_run.getWorkingDirectory()
            parser_input = XSDataXdsOutputFile()
            correct_lp_path = XSDataFile()
            correct_lp_path.path = XSDataString(os.path.join(wd, 'CORRECT.LP'))
            parser_input.correct_lp = correct_lp_path
            gxparm_path = os.path.join(wd, 'GXPARM.XDS')
            if os.path.isfile(gxparm_path):
                gxparm = XSDataFile()
                gxparm.path = XSDataString(os.path.join(wd, 'GXPARM.XDS'))
                parser_input.gxparm = gxparm

            parser.dataInput = parser_input
            parser.executeSynchronous()

            if parser.isFailure():
                # that should not happen
                self.setFailure()
                return
            self.dataOutput = parser.dataOutput
Esempio n. 2
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    def process(self, _edObject = None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlRunXds.process")
        # First run is vanilla without any modification
        params = XSDataMinimalXdsIn()
        params.input_file = self.dataInput.input_file
        self.first_run.dataInput = params
        self.first_run.executeSynchronous()

        EDVerbose.DEBUG('first run completed...')

        if self.first_run.dataOutput is not None and self.first_run.dataOutput.succeeded.value:
            EDVerbose.DEBUG('... and it worked')
            self.successful_run = self.first_run
        else:
            EDVerbose.DEBUG('... and it failed')


        if not self.successful_run:
            # second run w/ JOB set to DEFPIX INTEGRATE CORRECT
            self.second_run = self.loadPlugin(self.controlled_plugin_name)
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.jobs = 'DEFPIX INTEGRATE CORRECT'
            self.second_run.dataInput = params
            self.second_run.executeSynchronous()

            EDVerbose.DEBUG('second run completed')
            if self.second_run.dataOutput is not None and self.second_run.dataOutput.succeeded.value:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.second_run
            else:
                EDVerbose.DEBUG('... and it failed')


        if not self.successful_run:
        # third run with JOB set to ALL and mxaprocs = 4 and maxjobs = 1
            self.third_run = self.loadPlugin(self.controlled_plugin_name)
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.jobs = 'ALL'
            params.maxprocs = 4
            params.maxjobs = 1
            self.third_run.dataInput = params
            self.third_run.executeSynchronous()

            EDVerbose.DEBUG('third run completed')
            if self.third_run.dataOutput is not None and self.third_run.dataOutput.succeeded.value:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.third_run
            else:
                EDVerbose.DEBUG('... and it failed')


        if not self.successful_run:
        # final run with parallelism like 3 but JOB like 2
            self.final_run = self.loadPlugin(self.controlled_plugin_name)
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.jobs = 'DEFPIX INTEGRATE CORRECT'
            params.maxprocs = 4
            params.maxjobs = 1
            self.final_run.dataInput = params
            self.final_run.executeSynchronous()

            EDVerbose.DEBUG('final run completed')
            if self.final_run.dataOutput is not None and self.final_run.dataOutput.succeeded:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.final_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
        # all runs failed so bail out ...
            self.setFailure()
        else:
            # use the xds parser plugin to parse the xds output file...
            parser = self.loadPlugin("EDPluginParseXdsOutput")
            wd = self.successful_run.getWorkingDirectory()
            parser_input = XSDataXdsOutputFile()
            correct_lp_path = XSDataFile()
            correct_lp_path.path = XSDataString(os.path.join(wd, 'CORRECT.LP'))
            parser_input.correct_lp = correct_lp_path
            gxparm_path = os.path.join(wd, 'GXPARM.XDS')
            if os.path.isfile(gxparm_path):
                gxparm = XSDataFile()
                gxparm.path = XSDataString(os.path.join(wd, 'GXPARM.XDS'))
                parser_input.gxparm = gxparm

            parser.dataInput = parser_input
            parser.executeSynchronous()

            if parser.isFailure():
                # that should not happen
                self.setFailure()
                return
            self.dataOutput = parser.dataOutput
Esempio n. 3
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    def process(self, _edObject=None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlRunXdsFastProc.process")
        # First run is vanilla without any modification
        params = XSDataMinimalXdsIn()
        params.input_file = self.dataInput.input_file
        params.spacegroup = self.dataInput.spacegroup
        params.unit_cell = self.dataInput.unit_cell
        self.first_run.dataInput = params
        self.first_run.executeSynchronous()

        EDVerbose.DEBUG('first run completed...')

        if self.first_run.dataOutput is not None and self.first_run.dataOutput.succeeded.value:
            EDVerbose.DEBUG('... and it worked')
            self.successful_run = self.first_run
        else:
            EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            self.second_run = self.loadPlugin(self.controlled_plugin_name)
            self.DEBUG('retrying with increased SPOT_RANGE')
            self.DEBUG(
                'copying previously generated files to the new plugin dir')
            copy_xds_files(self.first_run.getWorkingDirectory(),
                           self.second_run.getWorkingDirectory())
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.job = XSDataString('DEFPIX INTEGRATE CORRECT')
            params.spacegroup = self.dataInput.spacegroup
            params.unit_cell = self.dataInput.unit_cell

            # increase all the spot ranges end by 20, constrained to
            # the data range upper limit
            spot_range = list()
            for srange in self.spot_range:
                range_begin = srange[0]
                range_end = srange[1] + 20
                if range_end > self.end_image_no:
                    self.DEBUG(
                        'End of range {0} would be past the last image {1}'.
                        format(range_end, self.end_image_no))
                    range_end = self.end_image_no
                self.DEBUG('Changing spot range {0} to [{1} {2}]'.format(
                    srange, range_begin, range_end))
                r = XSDataRange(begin=range_begin, end=range_end)
                spot_range.append(r)

            params.spot_range = spot_range

            self.second_run.dataInput = params
            self.second_run.executeSynchronous()

            EDVerbose.DEBUG('second run completed')
            if self.second_run.dataOutput is not None and self.second_run.dataOutput.succeeded.value:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.second_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            self.third_run = self.loadPlugin(self.controlled_plugin_name)
            self.DEBUG('retrying with increased SPOT_RANGE')
            self.DEBUG(
                'copying previously generated files to the new plugin dir')
            copy_xds_files(self.second_run.getWorkingDirectory(),
                           self.third_run.getWorkingDirectory())
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.job = XSDataString('DEFPIX INTEGRATE CORRECT')
            params.spacegroup = self.dataInput.spacegroup
            params.unit_cell = self.dataInput.unit_cell
            spot_range = list()
            for srange in self.spot_range:
                range_begin = srange[0]
                range_end = srange[1] + 40
                if range_end > self.end_image_no:
                    self.DEBUG(
                        'End of range {0} would be past the last image {1}'.
                        format(range_end, self.end_image_no))
                    range_end = self.end_image_no
                self.DEBUG('Changing spot range {0} to [{1} {2}]'.format(
                    srange, range_begin, range_end))
                r = XSDataRange(begin=range_begin, end=range_end)
                spot_range.append(r)

            params.spot_range = spot_range

            self.third_run.dataInput = params
            self.third_run.executeSynchronous()

            EDVerbose.DEBUG('third run completed')
            if self.third_run.dataOutput is not None and self.third_run.dataOutput.succeeded.value:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.third_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            # all runs failed so bail out ...
            self.setFailure()
        else:
            # use the xds parser plugin to parse the xds output file...
            parser = self.loadPlugin("EDPluginParseXdsOutput")
            wd = self.successful_run.getWorkingDirectory()
            parser_input = XSDataXdsOutputFile()
            correct_lp_path = XSDataFile()
            correct_lp_path.path = XSDataString(os.path.join(wd, 'CORRECT.LP'))
            parser_input.correct_lp = correct_lp_path
            gxparm_path = os.path.join(wd, 'GXPARM.XDS')
            if os.path.isfile(gxparm_path):
                gxparm = XSDataFile()
                gxparm.path = XSDataString(os.path.join(wd, 'GXPARM.XDS'))
                parser_input.gxparm = gxparm

            parser.dataInput = parser_input
            parser.executeSynchronous()

            if parser.isFailure():
                # that should not happen
                self.setFailure()
                return
            self.dataOutput = parser.dataOutput
Esempio n. 4
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    def process(self, _edObject=None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlRunXds.process")
        # First run is vanilla without any modification
        params = XSDataMinimalXdsIn()
        params.input_file = self.dataInput.input_file
        self.first_run.dataInput = params
        self.first_run.executeSynchronous()

        EDVerbose.DEBUG('first run completed...')

        if self.first_run.dataOutput is not None and self.first_run.dataOutput.succeeded:
            EDVerbose.DEBUG('... and it worked')
            self.successful_run = self.first_run
        else:
            EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            # second run w/ JOB set to DEFPIX INTEGRATE CORRECT
            self.second_run = self.loadPlugin(self.controlled_plugin_name)
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.jobs = 'DEFPIX INTEGRATE CORRECT'
            self.second_run.dataInput = params
            self.second_run.executeSynchronous()

            EDVerbose.DEBUG('second run completed')
            if self.second_run.dataOutput is not None and self.second_run.dataOutput.succeeded:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.second_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            # third run with JOB set to ALL and mxaprocs = 4 and maxjobs = 1
            self.third_run = self.loadPlugin(self.controlled_plugin_name)
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.jobs = 'ALL'
            params.maxprocs = 4
            params.maxjobs = 1
            self.third_run.dataInput = params
            self.third_run.executeSynchronous()

            EDVerbose.DEBUG('third run completed')
            if self.third_run.dataOutput is not None and self.third_run.dataOutput.succeeded:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.third_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            # final run with parallelism like 3 but JOB like 2
            self.final_run = self.loadPlugin(self.controlled_plugin_name)
            params = XSDataMinimalXdsIn()
            params.input_file = self.dataInput.input_file
            params.jobs = 'DEFPIX INTEGRATE CORRECT'
            params.maxprocs = 4
            params.maxjobs = 1
            self.final_run.dataInput = params
            self.final_run.executeSynchronous()

            EDVerbose.DEBUG('final run completed')
            if self.final_run.dataOutput is not None and self.final_run.dataOutput.succeeded:
                EDVerbose.DEBUG('... and it worked')
                self.successful_run = self.final_run
            else:
                EDVerbose.DEBUG('... and it failed')

        if not self.successful_run:
            # all runs failed so bail out ...
            self.setFailure()
        else:
            # use the xds parser plugin to parse the xds output file...
            parser = self.loadPlugin("EDPluginParseXdsOutput")
            wd = self.successful_run.getWorkingDirectory()
            parser_input = XSDataXdsOutputFile()
            correct_lp_path = XSDataFile()
            correct_lp_path.path = XSDataString(os.path.join(wd, 'CORRECT.LP'))
            parser_input.correct_lp = correct_lp_path
            gxparm_path = os.path.join(wd, 'GXPARM.XDS')
            if os.path.isfile(gxparm_path):
                gxparm = XSDataFile()
                gxparm.path = XSDataString(os.path.join(wd, 'GXPARM.XDS'))
                parser_input.gxparm = gxparm

            parser.dataInput = parser_input
            parser.executeSynchronous()

            if parser.isFailure():
                # that should not happen
                self.setFailure()
                return
            self.dataOutput = parser.dataOutput
Esempio n. 5
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    def process(self, _edObject = None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlAutoproc.process")

        # first XDS plugin run with supplied XDS file
        EDVerbose.screen("First XDS run...")
        self.xds_first.executeSynchronous()
        if self.xds_first.isFailure():
            EDVerbose.ERROR('first XDS run failed')
            self.setFailure()
            return
        EDVerbose.screen("First XDS run successfully completed")

        # apply the first res cutoff with the res extracted from the first XDS run
        EDVerbose.screen("First resolution cutoff")
        xdsresult = self.xds_first.dataOutput
        res_cutoff_in = XSDataResCutoff()
        res_cutoff_in.xds_res = xdsresult
        res_cutoff_in.completeness_entries = xdsresult.completeness_entries

        #XXX: remove from the data model as it is just pass-through?
        res_cutoff_in.total_completeness = xdsresult.total_completeness

        self.first_res_cutoff.dataInput = res_cutoff_in
        self.first_res_cutoff.executeSynchronous()
        if self.first_res_cutoff.isFailure():
            EDVerbose.ERROR("res cutoff failed")
            self.setFailure()
            return
        EDVerbose.screen("First resolution cutoff successfully completed")
        resolution = self.first_res_cutoff.dataOutput.res

        # for the generate w/ and w/out anom we have to specify where
        # the first XDS plugin run took place
        xds_run_directory = os.path.abspath(self.xds_first.dataOutput.xds_run_directory.value)
        EDVerbose.screen("the xds run took place in {}".format(xds_run_directory))
        generate_input = XSDataXdsGenerateInput()
        generate_input.resolution = resolution
        generate_input.previous_run_dir = XSDataString(xds_run_directory)
        self.generate.dataInput = generate_input

        self.generate.executeSynchronous()

        if self.generate.isFailure():
            EDVerbose.ERROR('generating w/ and w/out anom failed')
            self.setFailure()
            return

        # we can now use the xds output parser on the two correct.lp
        # files, w/ and w/out anom
        parse_anom_input = XSDataXdsOutputFile()
        parse_anom_input.correct_lp = XSDataFile()
        parse_anom_input.correct_lp.path = self.generate.dataOutput.correct_lp_anom

        self.parse_xds_anom.dataInput = parse_anom_input
        self.parse_xds_anom.executeSynchronous()

        if self.parse_xds_anom.isFailure():
            EDVerbose.ERROR('parsing the xds generated w/ anom failed')
            self.setFailure()
            return

        # now the other one w/out anom
        parse_noanom_input = XSDataXdsOutputFile()
        parse_noanom_input.correct_lp = XSDataFile()
        parse_noanom_input.correct_lp.path = self.generate.dataOutput.correct_lp_no_anom

        self.parse_xds_noanom.dataInput = parse_noanom_input
        self.parse_xds_noanom.executeSynchronous()

        if self.parse_xds_noanom.isFailure():
            EDVerbose.ERROR('parsing the xds generated w/ anom failed')
            self.setFailure()
            return

        # we now can apply the res cutoff on the anom and no anom
        # outputs. Note that this is not done in parallel, like the
        # xds parsing

        # XXX completeness_cutoff/res_override and isig_cutoff still
        # missing
        res_cutoff_anom_in = XSDataResCutoff()
        res_cutoff_anom_in.xds_res = self.parse_xds_anom.dataOutput
        self.res_cutoff_anom.dataInput = res_cutoff_anom_in

        self.res_cutoff_anom.executeSynchronous()
        if self.res_cutoff_anom.isFailure():
            EDVerbose.ERROR('res cutoff for anom data failed')

        # same for non anom
        res_cutoff_noanom_in = XSDataResCutoff()
        res_cutoff_noanom_in.xds_res = self.parse_xds_noanom.dataOutput
        self.res_cutoff_noanom.dataInput = res_cutoff_noanom_in

        self.res_cutoff_noanom.executeSynchronous()
        if self.res_cutoff_noanom.isFailure():
            EDVerbose.ERROR('res cutoff for non anom data failed')

        # now we just have to run XScale to generate w/ and w/out
        # anom, merged and unmerged

        # We use another control plugin for that to isolate the whole thing

#        if not self.res_cutoff_anom.isFailure():
        xscale_anom_in = XSDataXscaleInput()

        input_file = XSDataXscaleInputFile()
        input_file.path = self.generate.dataOutput.hkl_anom
        input_file.res = self.res_cutoff_anom.dataOutput.res

        xscale_anom_in.xds_files = [input_file]
        xscale_anom_in.unit_cell_constants = self.parse_xds_anom.dataOutput.unit_cell_constants
        xscale_anom_in.sg_number = self.parse_xds_anom.dataOutput.sg_number
        xscale_anom_in.bins = self.res_cutoff_anom.bins

        self.xscale_anom.dataInput = xscale_anom_in
        self.xscale_anom.executeSynchronous()

        if self.xscale_anom.isFailure():
            EDVerbose.ERROR('xscale anom/merge generation failed')

        # same for non anom code path

        #if not self.res_cutoff_noanom.isFailure():
        xscale_noanom_in = XSDataXscaleInput()

        input_file = XSDataXscaleInputFile()
        input_file.path = self.generate.dataOuput.hkl_anom
        input_file.res = self.res_cutoff_anom.dataOutput.res

        xscale_noanom_in.xds_files = [input_file]
        xscale_noanom_in.unit_cell_constants = self.parse_xds_noanom.dataOutput.unit_cell_constants
        xscale_noanom_in.sg_number = self.parse_xds_noanom.dataOutput.sg_number
        xscale_noanom_in.bins = self.res_cutoff_noanom.bins

        self.xscale_noanom.dataInput = xscale_noanom_in
        self.xscale_noanom.executeSynchronous()

        if self.xscale_noanom.isFailure():
            EDVerbose.ERROR('xscale anom/merge generation failed')
Esempio n. 6
0
            log_to_ispyb([self.integration_id_anom, self.integration_id_noanom],
                         'Scaling',
                         'Failed',
                         'anom/noanom generation failed in {0}s'.format(self.stats['anom/noanom_generation']))
            return
        else:
            EDVerbose.screen('generating w/ and w/out anom finished')
            log_to_ispyb([self.integration_id_anom, self.integration_id_noanom],
                         'Scaling',
                         'Successful',
                         'anom/noanom generation finished in {0}s'.format(self.stats['anom/noanom_generation']))

        # we can now use the xds output parser on the two correct.lp
        # files, w/ and w/out anom
        parse_anom_input = XSDataXdsOutputFile()
        parse_anom_input.correct_lp = XSDataFile()
        parse_anom_input.correct_lp.path = self.generate.dataOutput.correct_lp_anom

        # this one is the same as the first XDS run since they share
        # the same directory
        gxparm_file_anom = XSDataFile()
        gxparm_file_anom.path = self.generate.dataOutput.gxparm
        parse_anom_input.gxparm = gxparm_file_anom

        self.parse_xds_anom.dataInput = parse_anom_input

        self.parse_xds_anom.executeSynchronous()

        if self.parse_xds_anom.isFailure():
            EDVerbose.ERROR('parsing the xds generated w/ anom failed')
            self.setFailure()
Esempio n. 7
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                'Scaling', 'Failed',
                'anom/noanom generation failed in {0}s'.format(
                    self.stats['anom/noanom_generation']))
            return
        else:
            EDVerbose.screen('generating w/ and w/out anom finished')
            log_to_ispyb(
                [self.integration_id_anom, self.integration_id_noanom],
                'Scaling', 'Successful',
                'anom/noanom generation finished in {0}s'.format(
                    self.stats['anom/noanom_generation']))

        # we can now use the xds output parser on the two correct.lp
        # files, w/ and w/out anom
        parse_anom_input = XSDataXdsOutputFile()
        parse_anom_input.correct_lp = XSDataFile()
        parse_anom_input.correct_lp.path = self.generate.dataOutput.correct_lp_anom

        # this one is the same as the first XDS run since they share
        # the same directory
        gxparm_file_anom = XSDataFile()
        gxparm_file_anom.path = self.generate.dataOutput.gxparm
        parse_anom_input.gxparm = gxparm_file_anom

        self.parse_xds_anom.dataInput = parse_anom_input

        self.parse_xds_anom.executeSynchronous()

        if self.parse_xds_anom.isFailure():
            EDVerbose.ERROR('parsing the xds generated w/ anom failed')
            self.setFailure()