def __init__(self):
"""
"""
EDPluginControl.__init__(self)
self.setXSDataInputClass(XSDataInputBioSaxsAsciiExportv1_0)
self.__strControlledPluginSaxsCurves = "EDPluginExecSaxsCurvesv1_1"
self.__strControlledPluginWaitFile = "EDPluginWaitFile"
self.__strControlledPluginSaxsGetMetadata = "EDPluginBioSaxsMetadatav1_1"
self.__edPluginSaxsCurves = None
self.__edPluginWaitFile = None
self.__edPluginSaxsGetMetadata = None
self.integratedImage = None
self.integratedCurve = None
self.detector = None
self.detectorDistance = None
self.pixelSize_1 = None
self.pixelSize_2 = None
self.beamCenter_1 = None
self.beamCenter_2 = None
self.beamStopDiode = None
self.wavelength = None
self.maskFile = None
self.normalizationFactor = None
self.machineCurrent = None
self.code = None
self.comments = None
self.concentration = None
self.strProcessLog = ""
self.xsdResult = XSDataResultBioSaxsAsciiExportv1_0()
def testExecute(self):
"""
"""
self.run()
plugin = self.getPlugin()
################################################################################
# Compare XSDataResults
################################################################################
strExpectedOutput = self.readAndParseFile (self.getReferenceDataOutputFile())
# strObtainedOutput = self.readAndParseFile (self.m_edObtainedOutputDataFile)
EDVerbose.DEBUG("Checking obtained result...")
xsDataResultReference = XSDataResultBioSaxsAsciiExportv1_0.parseString(strExpectedOutput)
xsDataResultObtained = plugin.getDataOutput()
EDAssert.strAlmostEqual(xsDataResultReference.marshal(), xsDataResultObtained.marshal(), "XSDataResult output are the same", _strExcluded="bioSaxs")
################################################################################
# Compare spectrum ascii Files
################################################################################
outputData = open(xsDataResultObtained.getIntegratedCurve().getPath().value, "rb").read()
referenceData = open(os.path.join(self.getTestsDataImagesHome(), "bioSaxsAsciiExportv1_1.dat"), "rb").read()
EDAssert.strAlmostEqual(referenceData, outputData, _strComment="3-column ascii spectra files are the same", _fRelError=0.1, _fAbsError=0.1, _strExcluded="bioSaxs")
def preProcess(self):
"""
PreProcess of the execution test: download a set of images from http://www.edna-site.org
and remove any existing output file
"""
EDTestCasePluginExecute.preProcess(self)
self.loadTestImage([ "bioSaxsAsciiExportv1_1.dat", "bioSaxsIntegrated.edf"])
strExpectedOutput = self.readAndParseFile (self.getReferenceDataOutputFile())
EDVerbose.DEBUG("strExpectedOutput:" + strExpectedOutput)
xsDataResultReference = XSDataResultBioSaxsAsciiExportv1_0.parseString(strExpectedOutput)
self.integratedCurve = xsDataResultReference.getIntegratedCurve().getPath().value
EDVerbose.DEBUG("Output file is %s" % self.integratedCurve)
if not os.path.isdir(os.path.dirname(self.integratedCurve)):
os.makedirs(os.path.dirname(self.integratedCurve))
if os.path.isfile(self.integratedCurve):
EDVerbose.DEBUG(" Output Integrated Curve file exists %s, I will remove it" % self.integratedCurve)
os.remove(self.integratedCurve)
def testExecute(self):
"""
"""
self.run()
plugin = self.getPlugin()
################################################################################
# Compare XSDataResults
################################################################################
strExpectedOutput = self.readAndParseFile(
self.getReferenceDataOutputFile())
# strObtainedOutput = self.readAndParseFile (self.m_edObtainedOutputDataFile)
EDVerbose.DEBUG("Checking obtained result...")
xsDataResultReference = XSDataResultBioSaxsAsciiExportv1_0.parseString(
strExpectedOutput)
xsDataResultObtained = plugin.getDataOutput()
EDAssert.strAlmostEqual(xsDataResultReference.marshal(),
xsDataResultObtained.marshal(),
"XSDataResult output are the same",
_strExcluded="bioSaxs")
################################################################################
# Compare spectrum ascii Files
################################################################################
outputData = open(
xsDataResultObtained.getIntegratedCurve().getPath().value,
"rb").read()
referenceData = open(
os.path.join(self.getTestsDataImagesHome(),
"bioSaxsAsciiExportv1_1.dat"), "rb").read()
EDAssert.strAlmostEqual(
referenceData,
outputData,
_strComment="3-column ascii spectra files are the same",
_fRelError=0.1,
_fAbsError=0.1,
_strExcluded="bioSaxs")
def preProcess(self):
"""
PreProcess of the execution test: download a set of images from http://www.edna-site.org
and remove any existing output file
"""
EDTestCasePluginExecute.preProcess(self)
self.loadTestImage(["bioSaxsAsciiExport.dat", "bioSaxsIntegrated.edf"])
strExpectedOutput = self.readAndParseFile(
self.getReferenceDataOutputFile())
EDVerbose.DEBUG("strExpectedOutput:" + strExpectedOutput)
xsDataResultReference = XSDataResultBioSaxsAsciiExportv1_0.parseString(
strExpectedOutput)
self.integratedCurve = xsDataResultReference.getIntegratedCurve(
).getPath().value
EDVerbose.DEBUG("Output file is %s" % self.integratedCurve)
if not os.path.isdir(os.path.dirname(self.integratedCurve)):
os.makedirs(os.path.dirname(self.integratedCurve))
if os.path.isfile(self.integratedCurve):
EDVerbose.DEBUG(
" Output Integrated Curve file exists %s, I will remove it" %
self.integratedCurve)
os.remove(self.integratedCurve)
