Python logger.notice函数代码示例

    def PyExec(self):
        in_ws = mtd[self.getPropertyValue('InputWorkspace')]
        out_ws_name = self.getPropertyValue('OutputWorkspace')

        out_ws = ms.CreateEmptyTableWorkspace(OutputWorkspace=out_ws_name)

        out_ws.addColumn('str', 'statistic')

        stats = {
            'standard_deviation': dict(),
            'maximum': dict(),
            'minimum': dict(),
            'mean': dict(),
            'median': dict(),
        }

        for name in in_ws.getColumnNames():
            try:
                col_stats = _stats_to_dict(Stats.getStatistics(np.array([float(v) for v in in_ws.column(name)])))
                for statname in stats:
                    stats[statname][name] = col_stats[statname]
                out_ws.addColumn('float', name)
            except ValueError:
                logger.notice('Column \'%s\' is not numerical, skipping' % name)

        for name, stat in iteritems(stats):
            stat1 = dict(stat)
            stat1['statistic'] = name
            out_ws.addRow(stat1)

        self.setProperty('OutputWorkspace', out_ws)

    def get_vanadium(self, detector_mask, m1, colltrans, exp, indir):
        """
        This function returns either (vanadium_count, vanadium_monitor, None) or
        (None, None, vcorr) depending what type of file is provided by getProperty("Vanadium")
        """
        if not self.getProperty("Normalise").value:
            return None, None, np.ones(44)[detector_mask]

        vanadium_filename = self.getProperty("Vanadium").value
        if vanadium_filename:
            if vanadium_filename.split('.')[-1] == 'dat':
                vanadium = np.genfromtxt(vanadium_filename)
                vanadium_count = vanadium[:, 5:49].sum(axis=0)[detector_mask]
                vanadium_monitor = vanadium[:, 3].sum()
                logger.notice("Using vanadium data file: {}".format(vanadium_filename))
                return vanadium_count, vanadium_monitor, None
            else:
                vcorr_filename = vanadium_filename
        else: # Find adjacent vcorr file
            # m1 is the monochromator angle
            # m1 = 0 -> Ge 115, 1.54A
            # m1 = 9.45 -> Ge 113, 2.41A
            # colltrans is the collimator position, whether in or out of the beam
            # colltrans = 0 -> IN
            # colltrans = +/-80 -> OUT
            vcorr_filename = 'HB2A_{}__Ge_{}_{}_vcorr.txt'.format(exp,
                                                                  115 if np.isclose(m1, 0, atol=0.1) else 113,
                                                                  "IN" if np.isclose(colltrans, 0, atol=0.1) else "OUT")
        vcorr_filename = os.path.join(indir, vcorr_filename)
        logger.notice("Using vcorr file: {}".format(vcorr_filename))
        if not os.path.isfile(vcorr_filename):
            raise RuntimeError("Vanadium file {} does not exist".format(vcorr_filename))

        return None, None, np.genfromtxt(vcorr_filename)[detector_mask]

 def startup(self, cycle='14_3'):
     user_data_directory = os.path.normpath(self.use_folder + cycle)
     self.set_data_directory(user_data_directory)
     logger.notice("Raw Data in :   {}".format(user_data_directory))
     user_data_processed = self.out_folder
     self.set_user_directory(directory=user_data_processed)
     logger.notice("Processed Data in :   {}".format(user_data_processed))

def getWSprefix(wsname,runfile=None):
    '''Returns a string of the form '<ins><run>_<analyser><refl>_' on which
    all of our other naming conventions are built.
    The workspace is used to get the instrument parameters. If the runfile
    string is given it is expected to be a string with instrument prefix
    and run number. If it is empty then the workspace name is assumed to
    contain this information
    '''
    if wsname == '':
        return ''
    if runfile is None:
        runfile = wsname
    ws = mtd[wsname]
    facility = config['default.facility']
    if facility == 'ILL':
        instr = ws.getInstrument().getName()
        logger.notice('Facility is '+facility)
        prefix = instr + '_' + wsname[:-3]
    else:		
        (instr, run) = getInstrRun(runfile)
        run_name = instr + run
        try:
            analyser = ws.getInstrument().getStringParameter('analyser')[0]
            reflection = ws.getInstrument().getStringParameter('reflection')[0]
        except IndexError:
            analyser = ''
            reflection = ''
        prefix = run_name + '_' + analyser + reflection + '_'
    return prefix

	def PyExec(self):
		run_f2py_compatibility_test()
		
		self.log().information('Jump input')
		inType = self.getPropertyValue('InputType')
		prefix = self.getPropertyValue('Instrument')
		ana = self.getPropertyValue('Analyser')
		prog = self.getPropertyValue('QLprogram')
		jump = self.getPropertyValue('Fit')
		fw = self.getPropertyValue('Width')
		sam = self.getPropertyValue('SamNumber')

		sname = prefix+sam+'_'+ana+'_'+prog
		cropOp = self.getProperty('CropQ')
		if cropOp:
			qmin = self.getPropertyValue('Qmin')
			qmax = self.getPropertyValue('Qmax')
			qrange = [qmin, qmax]
		else:
			qrange = [0.0, 5.0]
		verbOp = self.getProperty('Verbose')
		plotOp = self.getProperty('Plot')
		saveOp = self.getProperty('Save')

		workdir = config['defaultsave.directory']
		if inType == 'File':
			path = os.path.join(workdir, sname+'_Parameters.nxs')					# path name for nxs file
			LoadNexusProcessed(Filename=path, OutputWorkspace=sname+'_Parameters')
			message = 'Input from File : '+path
		else:
			message = 'Input from Workspace : '+sname
		if verbOp:
			logger.notice(message)
		Main.JumpRun(sname,jump,prog,fw,cropOp,qrange,verbOp,plotOp,saveOp)

def createQaxis(inputWS):
    result = []
    ws = mtd[inputWS]
    nHist = ws.getNumberHistograms()
    if ws.getAxis(1).isSpectra():
        inst = ws.getInstrument()
        samplePos = inst.getSample().getPos()
        beamPos = samplePos - inst.getSource().getPos()
        for i in range(0,nHist):
            efixed = getEfixed(inputWS, i)
            detector = ws.getDetector(i)
            theta = getDetectorTwoTheta(detector, samplePos, beamPos) / 2
            lamda = math.sqrt(81.787/efixed)
            q = 4 * math.pi * math.sin(theta) / lamda
            result.append(q)
    else:
        axis = ws.getAxis(1)
        msg = 'Creating Axis based on Detector Q value: '
        if not axis.isNumeric():
            msg += 'Input workspace must have either spectra or numeric axis.'
            logger.notice(msg)
            sys.exit(msg)
        if ( axis.getUnit().unitID() != 'MomentumTransfer' ):
            msg += 'Input must have axis values of Q'
            logger.notice(msg)
            sys.exit(msg)
        for i in range(0, nHist):
            result.append(float(axis.label(i)))
    return result

    def _calculate_energy(self, monitor_ws, grouped_ws, red_ws):
        """
        Convert the input run to energy transfer

        @param monitor_ws :: name of the monitor workspace to divide by
        @param grouped_ws :: name of workspace with the detectors grouped
        @param red_ws :: name to call the reduced workspace
        """
        x_range = self._monitor_range(monitor_ws)
        Scale(InputWorkspace=monitor_ws, OutputWorkspace=monitor_ws, Factor=0.001, Operation='Multiply')

        CropWorkspace(InputWorkspace=monitor_ws, OutputWorkspace=monitor_ws, Xmin=x_range[0], XMax=x_range[1])
        ScaleX(InputWorkspace=monitor_ws, OutputWorkspace=monitor_ws, Factor=-x_range[0], Operation='Add')

        CropWorkspace(InputWorkspace=grouped_ws, OutputWorkspace=grouped_ws, Xmin=x_range[0], XMax=x_range[1])
        ScaleX(InputWorkspace=grouped_ws, OutputWorkspace=grouped_ws, Factor=-x_range[0], Operation='Add')

        Divide(LHSWorkspace=grouped_ws, RHSWorkspace=monitor_ws, OutputWorkspace=grouped_ws)
        formula = self._energy_range(grouped_ws)
        ConvertAxisByFormula(InputWorkspace=grouped_ws, OutputWorkspace=red_ws, Axis='X', Formula=formula,
                             AxisTitle='Energy transfer', AxisUnits='meV')

        if self._verbose:
            xnew = mtd[red_ws].readX(0)  # energy array
            logger.notice('Energy range : %f to %f' % (xnew[0], xnew[-1]))

        DeleteWorkspace(grouped_ws)
        DeleteWorkspace(monitor_ws)

def unwrap_monitor(workspace_name):
    """
    Unwrap monitor if required based on value of Workflow.UnwrapMonitor parameter

    @param workspace_name Name of workspace
    @return True if the monitor was unwrapped
    """
    from mantid.simpleapi import (UnwrapMonitor, RemoveBins, FFTSmooth)

    monitor_workspace_name = workspace_name + '_mon'
    instrument = mtd[monitor_workspace_name].getInstrument()

    # Determine if the monitor should be unwrapped
    try:
        unwrap = instrument.getStringParameter('Workflow.UnwrapMonitor')[0]

        if unwrap == 'Always':
            should_unwrap = True
        elif unwrap == 'BaseOnTimeRegime':
            mon_time = mtd[monitor_workspace_name].readX(0)[0]
            det_time = mtd[workspace_name].readX(0)[0]
            logger.notice(str(mon_time) + " " + str(det_time))
            should_unwrap = mon_time == det_time
        else:
            should_unwrap = False

    except IndexError:
        should_unwrap = False

    logger.debug('Need to unwrap monitor for %s: %s' % (workspace_name, str(should_unwrap)))

    if should_unwrap:
        sample = instrument.getSample()
        sample_to_source = sample.getPos() - instrument.getSource().getPos()
        radius = mtd[workspace_name].getDetector(0).getDistance(sample)
        z_dist = sample_to_source.getZ()
        l_ref = z_dist + radius

        logger.debug('For workspace %s: radius=%d, z_dist=%d, l_ref=%d' %
                     (workspace_name, radius, z_dist, l_ref))

        _, join = UnwrapMonitor(InputWorkspace=monitor_workspace_name,
                                OutputWorkspace=monitor_workspace_name,
                                LRef=l_ref)

        RemoveBins(InputWorkspace=monitor_workspace_name,
                   OutputWorkspace=monitor_workspace_name,
                   XMin=join - 0.001, XMax=join + 0.001,
                   Interpolation='Linear')

        try:
            FFTSmooth(InputWorkspace=monitor_workspace_name,
                      OutputWorkspace=monitor_workspace_name,
                      WorkspaceIndex=0,
                      IgnoreXBins=True)
        except ValueError:
            raise ValueError('Uneven bin widths are not supported.')

    return should_unwrap

 def load_multi_run_part(self, extension, run, panel):
     filename = self.get_file_name(run, extension)
     logger.notice("reading filename... {}".format(filename))
     spectra_min, spectra_max = self.return_panel.get(panel)
     output1 = "w{0}-{1}".format(run, panel)
     simple.LoadRaw(Filename=filename, OutputWorkspace=output1, SpectrumMin=str(spectra_min),
                    SpectrumMax=str(spectra_max), LoadLogFiles="0")
     return output1

    def PyExec(self):
        from IndirectImport import run_f2py_compatibility_test, is_supported_f2py_platform

        if is_supported_f2py_platform():
            import IndirectBayes as Main

        run_f2py_compatibility_test()

        self.log().information('Quest input')
        inType = self.getPropertyValue('InputType')
        prefix = self.getPropertyValue('Instrument')
        ana = self.getPropertyValue('Analyser')
        sam = self.getPropertyValue('SamNumber')
        rinType = self.getPropertyValue('ResInputType')
        res = self.getPropertyValue('ResNumber')
        elastic = self.getProperty('ElasticOption').value
        bgd = self.getPropertyValue('BackgroundOption')
        emin = self.getPropertyValue('EnergyMin')
        emax = self.getPropertyValue('EnergyMax')
        nbin = self.getPropertyValue('SamBinning')
        nbins = [nbin, 1]
        nbet = self.getProperty('NumberBeta').value
        nsig = self.getProperty('NumberSigma').value
        nbs = [nbet, nsig]

        sname = prefix+sam+'_'+ana + '_red'
        rname = prefix+res+'_'+ana + '_res'
        erange = [float(emin), float(emax)]
        if elastic:
            o_el = 1
        else:
            o_el = 0
        fitOp = [o_el, bgd, 0, 0]
        loopOp = self.getProperty('Sequence').value
        verbOp = self.getProperty('Verbose').value
        plotOp = self.getPropertyValue('Plot')
        saveOp = self.getProperty('Save').value

        workdir = config['defaultsave.directory']
        if inType == 'File':
            spath = os.path.join(workdir, sname+'.nxs')        # path name for sample nxs file
            LoadNexusProcessed(Filename=spath, OutputWorkspace=sname)
            Smessage = 'Sample from File : '+spath
        else:
            Smessage = 'Sample from Workspace : '+sname

        if rinType == 'File':
            rpath = os.path.join(workdir, rname+'.nxs')        # path name for res nxs file
            LoadNexusProcessed(Filename=rpath, OutputWorkspace=rname)
            Rmessage = 'Resolution from File : '+rpath
        else:
            Rmessage = 'Resolution from Workspace : '+rname

        if verbOp:
            logger.notice(Smessage)
            logger.notice(Rmessage)
        Main.QuestRun(sname,rname,nbs,erange,nbins,fitOp,loopOp,plotOp,saveOp)

    def PyExec(self):
        run_f2py_compatibility_test()

        self.log().information("Quest input")
        inType = self.getPropertyValue("InputType")
        prefix = self.getPropertyValue("Instrument")
        ana = self.getPropertyValue("Analyser")
        sam = self.getPropertyValue("SamNumber")
        rinType = self.getPropertyValue("ResInputType")
        res = self.getPropertyValue("ResNumber")
        elastic = self.getProperty("ElasticOption")
        bgd = self.getPropertyValue("BackgroundOption")
        emin = self.getPropertyValue("EnergyMin")
        emax = self.getPropertyValue("EnergyMax")
        nbin = self.getPropertyValue("SamBinning")
        nbins = [nbin, 1]
        nbet = self.getPropertyValue("NumberBeta")
        nsig = self.getPropertyValue("NumberSigma")
        nbs = [nbet, nsig]

        sname = prefix + sam + "_" + ana + "_red"
        rname = prefix + res + "_" + ana + "_res"
        erange = [float(emin), float(emax)]
        if elastic:
            o_el = 1
        else:
            o_el = 0
        if bgd == "Sloping":
            o_bgd = 2
        if bgd == "Flat":
            o_bgd = 1
        if bgd == "Zero":
            o_bgd = 0
        fitOp = [o_el, o_bgd, 0, 0]
        loopOp = self.getProperty("Sequence")
        verbOp = self.getProperty("Verbose")
        plotOp = self.getPropertyValue("Plot")
        saveOp = self.getProperty("Save")

        workdir = config["defaultsave.directory"]
        if inType == "File":
            spath = os.path.join(workdir, sname + ".nxs")  # path name for sample nxs file
            LoadNexusProcessed(Filename=spath, OutputWorkspace=sname)
            Smessage = "Sample from File : " + spath
        else:
            Smessage = "Sample from Workspace : " + sname
        if rinType == "File":
            rpath = os.path.join(workdir, rname + ".nxs")  # path name for res nxs file
            LoadNexusProcessed(Filename=rpath, OutputWorkspace=rname)
            Rmessage = "Resolution from File : " + rpath
        else:
            Rmessage = "Resolution from Workspace : " + rname
        if verbOp:
            logger.notice(Smessage)
            logger.notice(Rmessage)
        Main.QuestRun(sname, rname, nbs, erange, nbins, fitOp, loopOp, verbOp, plotOp, saveOp)

def SymmStart(inType,sname,cut,Verbose,Plot,Save):
	StartTime('Symmetrise')
	workdir = config['defaultsave.directory']
	if inType == 'File':
		spath = os.path.join(workdir, sname+'.nxs')		# path name for sample nxs file
		LoadNexusProcessed(FileName=spath, OutputWorkspace=sname)
		message = 'Input from File : '+spath
	else:
		message = 'Input from Workspace : '+sname
	if Verbose:
		logger.notice(message)
	SymmRun(sname,cut,Verbose,Plot,Save)
	EndTime('Symmetrise')

def CheckHistZero(inWS):
    nhist = mtd[inWS].getNumberHistograms()       # no. of hist/groups in WS
    if nhist == 0:
        error = 'Workspace '+inWS+' has NO histograms'			
        logger.notice('ERROR *** ' + error)
        sys.exit(error)
    Xin = mtd[inWS].readX(0)
    ntc = len(Xin)-1						# no. points from length of x array
    if ntc == 0:
        error = 'Workspace '+inWS+' has NO points'			
        logger.notice('ERROR *** ' + error)
        sys.exit(error)
    return nhist,ntc

 def read(self, number, panel, extension):
     if type(number) is int:
         filename = self.datafile
         logger.notice("will be reading filename...{}".format(filename))
         spectra_min, spectra_max = self.return_panel_van.get(panel) if self.is_vanadium else \
             self.return_panel.get(panel)
         if panel != 0:
             output = "w{0}-{1}".format(number, panel)
         else:
             output = "w{}".format(number)
         shared_load_files(extension, filename, output, spectra_max, spectra_min, False)
         if extension == "nxs_event":
             simple.LoadEventNexus(Filename=filename, OutputWorkspace=output, LoadMonitors='1')
             self.read_event_nexus(number, output, panel)
         if extension[:10] == "nxs_event_":
             label, tmin, tmax = split_string_event(extension)
             output = output + "_" + label
             if tmax == "end":
                 simple.LoadEventNexus(Filename=filename, OutputWorkspace=output, FilterByTimeStart=tmin,
                                       LoadMonitors='1', MonitorsAsEvents='1', FilterMonByTimeStart=tmin)
             else:
                 simple.LoadEventNexus(Filename=filename, OutputWorkspace=output, FilterByTimeStart=tmin,
                                       FilterByTimeStop=tmax, LoadMonitors='1', MonitorsAsEvents='1',
                                       FilterMonByTimeStart=tmin, FilterMonByTimeStop=tmax)
             self.read_event_nexus(number, output, panel)
     else:
         num_1, num_2 = split_run_string(number)
         output = "w{0}_{1}-{2}".format(num_1, num_2, panel)
         output1 = self.load_multi_run_part(extension, num_1, panel)
         output2 = self.load_multi_run_part(extension, num_2, panel)
         simple.MergeRuns(output1 + "," + output2, output)
         simple.DeleteWorkspace(output1)
         simple.DeleteWorkspace(output2)
     simple.ConvertUnits(InputWorkspace=output, OutputWorkspace=output, Target="Wavelength", Emode="Elastic")
     lmin, lmax = Wish.LAMBDA_RANGE
     simple.CropWorkspace(InputWorkspace=output, OutputWorkspace=output, XMin=lmin, XMax=lmax)
     monitor_run = "monitor{}".format(number)
     if monitor_run not in simple.mtd:
         monitor = self.process_incidentmon(number, extension, spline_terms=70)
     else:
         monitor = simple.mtd[monitor_run]
     simple.NormaliseToMonitor(InputWorkspace=output, OutputWorkspace=output + "norm1", MonitorWorkspace=monitor)
     simple.NormaliseToMonitor(InputWorkspace=output + "norm1", OutputWorkspace=output + "norm2",
                               MonitorWorkspace=monitor, IntegrationRangeMin=0.7, IntegrationRangeMax=10.35)
     simple.DeleteWorkspace(output)
     simple.DeleteWorkspace(output + "norm1")
     simple.RenameWorkspace(InputWorkspace=output + "norm2", OutputWorkspace=output)
     simple.ConvertUnits(InputWorkspace=output, OutputWorkspace=output, Target="TOF", EMode="Elastic")
     simple.ReplaceSpecialValues(InputWorkspace=output, OutputWorkspace=output, NaNValue=0.0, NaNError=0.0,
                                 InfinityValue=0.0, InfinityError=0.0)
     return output

def CubicFit(inputWS, spec, Verbose=False):
    '''Uses the Mantid Fit Algorithm to fit a quadratic to the inputWS
    parameter. Returns a list containing the fitted parameter values.'''
    function = 'name=Quadratic, A0=1, A1=0, A2=0'
    fit = Fit(Function=function, InputWorkspace=inputWS, WorkspaceIndex=spec,
      CreateOutput=True, Output='Fit')
    table = mtd['Fit_Parameters']
    A0 = table.cell(0,1)
    A1 = table.cell(1,1)
    A2 = table.cell(2,1)
    Abs = [A0, A1, A2]
    if Verbose:
       logger.notice('Group '+str(spec)+' of '+inputWS+' ; fit coefficients are : '+str(Abs))
    return Abs