def _processTT(self, pagenumber):
"""
@type pagenumber: integer
@param pagenumber: Number of page to parse
@return: Complex dataset, please read function description.
Extracts various information from 'Pretraced SVG' and 'Traced SVG'.
Return complex dataset:
1. 'Pretraced SVG' file DOM object
2. Matrix for transforming from SVG coordinate system to
stereotactic coordinate system
3. Bregma coordinate
4. Dataset with information about all text elements (labels).
"""
# Extract filename corresponding to most advanced version of give slide
pretracedFilename = self.fileSelector._getMostAdvancedFilename(pagenumber)
svgdom = dom.parse(pretracedFilename) # Parse input fie
#XXX Aligning slides to reference coordinates in advance (not used)
# due to lack of performance
if self.aligner.makeAlignment(svgdom):
svgfix.fixSvgImage(svgdom, fixHeader=False)# If there's a need to
wasFixed = True # fix image (if alignment
print "FIXING" # was made - do it)
else:
wasFixed = False
return svgdom, pretracedFilename, wasFixed
def _processTT(self, pagenumber):
"""
@type pagenumber: integer
@param pagenumber: Number of page to parse
@return: Complex dataset, please read function description.
Extracts various information from 'Pretraced SVG' and 'Traced SVG'.
Return complex dataset:
1. 'Pretraced SVG' file DOM object
2. Matrix for transforming from SVG coordinate system to
stereotactic coordinate system
3. Bregma coordinate
4. Dataset with information about all text elements (labels).
"""
# Extract filename corresponding to most advanced version of give slide
pretracedFilename = self.fileSelector._getMostAdvancedFilename(
pagenumber)
svgdom = dom.parse(pretracedFilename) # Parse input fie
#XXX Aligning slides to reference coordinates in advance (not used)
# due to lack of performance
if self.aligner.makeAlignment(svgdom):
svgfix.fixSvgImage(svgdom, fixHeader=False) # If there's a need to
wasFixed = True # fix image (if alignment
print "FIXING" # was made - do it)
else:
wasFixed = False
return svgdom, pretracedFilename, wasFixed
def _processFromRawSVG(self, pagenumber):
"""
@type pagenumber: integer
@param pagenumber: Number of page to parse
@return: Complex dataset, please read function description.
Processes SVG files from 'Raw SVG' type to 'Pretraced SVG' status. Returns
complex dataset:
1. 'Pretraced SVG' file DOM object
2. Matrix for transforming from SVG coordinate system to
stereotactic coordinate system
3. Bregma coordinate
4. Dataset with information about all text elements (labels).
Performs processing from rawSVG file status to pretraced status
"""
# Select filename corresponding with given pagenumber
filename = self.fileSelector._getMostAdvancedFilename(pagenumber)
svgdom = dom.parse(filename) # Parse input file
svg = svgdom.getElementsByTagName('svg')[0]
svg.setAttribute('xmlns:bar', "http://www.3dbar.org")
svgfix.fixSvgImage(svgdom, pagenumber) # Simplify input file structure
(bregma, offsets) = fcoords.processFile(
svgdom) # Extracts bregma coordinate and
# scalings and offsets for
# converting to stereotaxic coordinates
matcharrows.DoMatch(svgdom) # Calculate labels coordinates
matcharrows.symmetrizeLabels(
svgdom, offsets) # Make structures labels symmetric
fcoords._indexElements(svgdom) # Assign uniqe id to each SVG element
if self.aligner.makeAlignment(svgdom):
svgfix.fixSvgImage(svgdom, fixHeader=False) # If there's a need to
print "FIXING" # was made - do it)
# fix image (if alignment
# was made - do it)
return svgdom
def _processFromRawSVG(self, pagenumber):
"""
@type pagenumber: integer
@param pagenumber: Number of page to parse
@return: Complex dataset, please read function description.
Processes SVG files from 'Raw SVG' type to 'Pretraced SVG' status. Returns
complex dataset:
1. 'Pretraced SVG' file DOM object
2. Matrix for transforming from SVG coordinate system to
stereotactic coordinate system
3. Bregma coordinate
4. Dataset with information about all text elements (labels).
Performs processing from rawSVG file status to pretraced status
"""
# Select filename corresponding with given pagenumber
filename = self.fileSelector._getMostAdvancedFilename(pagenumber)
svgdom = dom.parse(filename) # Parse input file
svg = svgdom.getElementsByTagName('svg')[0]
svg.setAttribute('xmlns:bar',"http://www.3dbar.org")
svgfix.fixSvgImage(svgdom, pagenumber) # Simplify input file structure
(bregma, offsets) = fcoords.processFile(svgdom) # Extracts bregma coordinate and
# scalings and offsets for
# converting to stereotaxic coordinates
matcharrows.DoMatch(svgdom) # Calculate labels coordinates
matcharrows.symmetrizeLabels(svgdom, offsets) # Make structures labels symmetric
fcoords._indexElements(svgdom) # Assign uniqe id to each SVG element
if self.aligner.makeAlignment(svgdom):
svgfix.fixSvgImage(svgdom, fixHeader=False)# If there's a need to
print "FIXING" # was made - do it)
# fix image (if alignment
# was made - do it)
return svgdom
