def buildChildren(self, child_, nodeName_):
if child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv1ResultCharacterisation':
obj_ = XSDataResultCharacterisation()
obj_.build(child_)
self.setMxv1ResultCharacterisation(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv1ResultCharacterisation_Reference':
obj_ = XSDataResultCharacterisation()
obj_.build(child_)
self.setMxv1ResultCharacterisation_Reference(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv2DataCollection':
obj_ = XSDataCollection()
obj_.build(child_)
self.setMxv2DataCollection(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv2DataCollection_Reference':
obj_ = XSDataCollection()
obj_.build(child_)
self.setMxv2DataCollection_Reference(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'suggestedStrategy':
obj_ = XSDataResultStrategy()
obj_.build(child_)
self.setSuggestedStrategy(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'possibleOrientations':
obj_ = kappa_alignment_response()
obj_.build(child_)
self.setPossibleOrientations(obj_)
XSDataResultInterface.buildChildren(self, child_, nodeName_)
def writeKappaSettings(self):
'''
# future version for getting motor positions related to images under processing
# checking in order:
# - value got as input
# - mosflm.descr file in process subdir (if BCM (like mxcube) registered it)
# - {imageTemplate}_kappa_settings.xml file (if BCM (like DNA) registered it)
# - read it now (and try to register as {imageTemplate}_kappa_settings.xml)
# - just use the datum (0,0,0)
'''
#code for using a predefined datum (0;0;0)
#EDUtilsFile.writeFile( EDDiskExplorer.mergePath( self.getWorkingDirectory(), "DNA_STAC_Kappa_Settings" ), "<?xml version=\"1.0\" encoding=\"ISO-8859-1\"?><kappa_collect_settings><motorSettings><motorName>Omega</motorName><motorValue>0</motorValue></motorSettings><motorSettings><motorName>Kappa</motorName><motorValue>0.000000</motorValue></motorSettings><motorSettings><motorName>Phi</motorName><motorValue>0</motorValue></motorSettings><motorSettings><motorName>X</motorName><motorValue>0.261444</motorValue></motorSettings><motorSettings><motorName>Y</motorName><motorValue>-0.085559</motorValue></motorSettings><motorSettings><motorName>Z</motorName><motorValue>0.659333</motorValue></motorSettings><comment>BCM query performed by STAC</comment></kappa_collect_settings>")
# gonio settings from DC descriptor object
EDFactoryPluginStatic.loadModule("XSDataMXv2")
#import XSDataMXv2
#dc = XSDataMXv2.XSDataCollection()
from XSDataMXv2 import XSDataCollection
dc = XSDataCollection()
dc = self.getDataInput("dataCollection")[0]
omega = dc.getXSSubWedge()[0].getXSRotationalGoniostatSetting().getBaseaxissetting()
[kappa, phi] = dc.getXSSubWedge()[0].getXSRotationalGoniostatSetting().getAxissetting()
EDUtilsFile.writeFile(os.path.join(self.getWorkingDirectory(), "DNA_STAC_Kappa_Settings"), "<?xml version=\"1.0\" encoding=\"ISO-8859-1\"?><kappa_collect_settings><motorSettings><motorName>Omega</motorName><motorValue>%e</motorValue></motorSettings><motorSettings><motorName>Kappa</motorName><motorValue>%e</motorValue></motorSettings><motorSettings><motorName>Phi</motorName><motorValue>%e</motorValue></motorSettings><motorSettings><motorName>X</motorName><motorValue>0.261444</motorValue></motorSettings><motorSettings><motorName>Y</motorName><motorValue>-0.085559</motorValue></motorSettings><motorSettings><motorName>Z</motorName><motorValue>0.659333</motorValue></motorSettings><comment>BCM query performed by STAC</comment></kappa_collect_settings>" % (omega.getValue(), kappa.getValue(), phi.getValue()))
'''
def writeKappaSettings(self):
'''
# future version for getting motor positions related to images under processing
# checking in order:
# - value got as input
# - mosflm.descr file in process subdir (if BCM (like mxcube) registered it)
# - {imageTemplate}_kappa_settings.xml file (if BCM (like DNA) registered it)
# - read it now (and try to register as {imageTemplate}_kappa_settings.xml)
# - just use the datum (0,0,0)
'''
#code for using a predefined datum (0;0;0)
#EDUtilsFile.writeFile( EDDiskExplorer.mergePath( self.getWorkingDirectory(), "DNA_STAC_Kappa_Settings" ), "<?xml version=\"1.0\" encoding=\"ISO-8859-1\"?><kappa_collect_settings><motorSettings><motorName>Omega</motorName><motorValue>0</motorValue></motorSettings><motorSettings><motorName>Kappa</motorName><motorValue>0.000000</motorValue></motorSettings><motorSettings><motorName>Phi</motorName><motorValue>0</motorValue></motorSettings><motorSettings><motorName>X</motorName><motorValue>0.261444</motorValue></motorSettings><motorSettings><motorName>Y</motorName><motorValue>-0.085559</motorValue></motorSettings><motorSettings><motorName>Z</motorName><motorValue>0.659333</motorValue></motorSettings><comment>BCM query performed by STAC</comment></kappa_collect_settings>")
# gonio settings from DC descriptor object
EDFactoryPluginStatic.loadModule("XSDataMXv2")
#import XSDataMXv2
#dc = XSDataMXv2.XSDataCollection()
from XSDataMXv2 import XSDataCollection
dc = XSDataCollection()
dc = self.getDataInput("dataCollection")[0]
omega = dc.getXSSubWedge()[0].getXSRotationalGoniostatSetting(
).getBaseaxissetting()
[kappa, phi] = dc.getXSSubWedge()[0].getXSRotationalGoniostatSetting(
).getAxissetting()
EDUtilsFile.writeFile(
os.path.join(self.getWorkingDirectory(),
"DNA_STAC_Kappa_Settings"),
"<?xml version=\"1.0\" encoding=\"ISO-8859-1\"?><kappa_collect_settings><motorSettings><motorName>Omega</motorName><motorValue>%e</motorValue></motorSettings><motorSettings><motorName>Kappa</motorName><motorValue>%e</motorValue></motorSettings><motorSettings><motorName>Phi</motorName><motorValue>%e</motorValue></motorSettings><motorSettings><motorName>X</motorName><motorValue>0.261444</motorValue></motorSettings><motorSettings><motorName>Y</motorName><motorValue>-0.085559</motorValue></motorSettings><motorSettings><motorName>Z</motorName><motorValue>0.659333</motorValue></motorSettings><comment>BCM query performed by STAC</comment></kappa_collect_settings>"
% (omega.getValue(), kappa.getValue(), phi.getValue()))
'''
def buildChildren(self, child_, nodeName_):
if child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv1InputCharacterisation':
obj_ = XSDataInputCharacterisation()
obj_.build(child_)
self.setMxv1InputCharacterisation(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv1ResultCharacterisation_Reference':
obj_ = XSDataResultCharacterisation()
obj_.build(child_)
self.setMxv1ResultCharacterisation_Reference(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv2DataCollection':
obj_ = XSDataCollection()
obj_.build(child_)
self.setMxv2DataCollection(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'mxv2DataCollection_Reference':
obj_ = XSDataCollection()
obj_.build(child_)
self.setMxv2DataCollection_Reference(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'possibleOrientations':
obj_ = kappa_alignment_response()
obj_.build(child_)
self.setPossibleOrientations(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'omega':
obj_ = XSDataAngle()
obj_.build(child_)
self.setOmega(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'kappa':
obj_ = XSDataAngle()
obj_.build(child_)
self.setKappa(obj_)
elif child_.nodeType == Node.ELEMENT_NODE and \
nodeName_ == 'phi':
obj_ = XSDataAngle()
obj_.build(child_)
self.setPhi(obj_)
XSDataInputInterface.buildChildren(self, child_, nodeName_)
def setPluginInput(self, _edPlugin):
EDApplicationMXv1Characterisation.setPluginInput(self, _edPlugin)
if (not self.__strGeneratedTemplateFileMXv2 is None):
_edPlugin.setDataInput(XSDataString(self.__strGeneratedTemplateFileMXv2), "generatedTemplateFileMXv2")
if self.__bTemplateModeMXv2:
# Delete the existing entry if any
if _edPlugin.hasDataInput("templateMode"):
_edPlugin.setDataInput(None, "templateMode")
_edPlugin.setDataInput(XSDataBoolean(self.__bTemplateModeMXv2), "templateMode")
if self.__strDataCollectionMXv2File:
xsDataCollectionMXv2 = XSDataCollection_v2.parseFile(self.__strDataCollectionMXv2File)
_edPlugin.setDataInput(xsDataCollectionMXv2, "mxv2DataCollection")
def setPluginInput(self, _edPlugin):
EDApplicationMXv1Characterisation.setPluginInput(self, _edPlugin)
if (not self.__strGeneratedTemplateFileMXv2 is None):
_edPlugin.setDataInput(
XSDataString(self.__strGeneratedTemplateFileMXv2),
"generatedTemplateFileMXv2")
if self.__bTemplateModeMXv2:
# Delete the existing entry if any
if _edPlugin.hasDataInput("templateMode"):
_edPlugin.setDataInput(None, "templateMode")
_edPlugin.setDataInput(XSDataBoolean(self.__bTemplateModeMXv2),
"templateMode")
if self.__strDataCollectionMXv2File:
xsDataCollectionMXv2 = XSDataCollection_v2.parseFile(
self.__strDataCollectionMXv2File)
_edPlugin.setDataInput(xsDataCollectionMXv2, "mxv2DataCollection")
