elif metal.find(' F ') != -1:
idSeries = series_f.id
bitDepth = 16
elif metal.find(' IHC ') != -1:
idSeries = series_ihc.id
bitDepth = 8
if os.path.exists('/mnt/data001/MBAProcessingResults/PMD/'+sr+'/'+sr+'_'+scOrder+'.jp2'):
section = Section(series_id=idSeries, name=scName, sectionOrder=scOrder, pngPathLow='/mnt/data001/MBAProcessingResults/MaskOverview/PMD/'+sr+'/'+sr+'_'+scOrder+'.jpg', jp2Path='/mnt/data001/MBAProcessingResults/PMD/'+sr+'/'+sr+'_'+scOrder+'.jp2',jp2FileSize=os.path.getsize('/mnt/data001/MBAProcessingResults/PMD/'+sr+'/'+sr+'_'+scOrder+'.jp2'), jp2BitDepth=bitDepth)
section.save()
idSection = section.id
if metal.find(' N ') != -1 and firstN:
series_n.sampleSection_id = idSection
series_n.save()
firstN = False
elif metal.find(' F ') != -1 and firstF:
series_f.sampleSection_id = idSection
series_f.save()
firstF = False
elif metal.find(' IHC ') != -1 and firstIHC:
series_ihc.sampleSection_id = idSection
series_ihc.save()
firstIHC = False
else:
errorf.write('File not found : ' +sr+'_'+scOrder+'.jp2'+ '\n')
continue
dist2injDict = {'N':100, 'IHC':100, 'F':100}
label2uintDict = {'N':8, 'IHC':8, 'F':16}
for sectionName in section2labelDict:
if os.path.exists('/brainimg/' + brainName + '/' + sectionName + '.jp2'):
label = section2labelDict[sectionName]
series = Series.objects.get(desc=brain.name + ' ' + label2fullDict[label])
series.numQCSections += 1
series.save()
section = Section(series_id = series.id, name = sectionName,
sectionOrder = sectionName[sectionName.rfind("_")+1:len(sectionName)],
pngPathLow = '/brainimg/' + brainName + '/' + sectionName + '.jpg',
jp2Path = '/brainimg/' + brainName + '/' + sectionName + '.jp2',
jp2FileSize = os.path.getsize('/brainimg/'+brainName+'/'+sectionName+'.jp2'),
jp2BitDepth = label2uintDict[label], y_coord = section2yDict[sectionName])
section.save()
dataresolver = DataResolver(section_id = section.id, identifier = 'MouseBrain/'+str(section.id),
imageFile='/brainimg/'+brainName+'/'+sectionName+'.jp2')
dataresolver.save()
try:
dist2injSec = abs(float(section2yDict[sectionName])-float(mouse.ycoord))
if dist2injSec < dist2injDict[label]:
dist2injDict[label] = dist2injSec
series.sampleSection_id = section.id
except:
series.sampleSection_id = section.id
series.save()
