def test_mrcsLink(self):
""" In this case just a link with .mrcs extension
should be created
"""
stackFile = self.dsEmx.getFile('particles/particles.mrc')
partSet = SetOfParticles(filename=':memory:')
for i in range(1, 10):
particle = Particle()
particle.setLocation(i, stackFile)
partSet.append(particle)
outputDir = self.getOutputPath()
filesDict = convertBinaryFiles(partSet, outputDir)
print filesDict
def test_mrcsLink(self):
""" In this case just a link with .mrcs extension
should be created
"""
stackFile = self.dsEmx.getFile('particles/particles.mrc')
partSet = SetOfParticles(filename=':memory:')
for i in range(1, 10):
particle = Particle()
particle.setLocation(i, stackFile)
partSet.append(particle)
outputDir = self.getOutputPath()
filesDict = convertBinaryFiles(partSet, outputDir)
print filesDict
def test_hdfToStk(self):
""" In this case the hdf stack files should be converted
to .stk spider files for Relion.
"""
stackFiles = [
'BPV_1386_ptcls.hdf', 'BPV_1387_ptcls.hdf', 'BPV_1388_ptcls.hdf'
]
partSet = SetOfParticles(filename=':memory:')
for fn in stackFiles:
particle = Particle()
particle.setLocation(1, self.ds.getFile('particles/%s' % fn))
partSet.append(particle)
outputDir = self.getOutputPath()
filesDict = convertBinaryFiles(partSet, outputDir)
partSet.close()
print filesDict
def test_hdfToStk(self):
""" In this case the hdf stack files should be converted
to .stk spider files for Relion.
"""
stackFiles = ['BPV_1386_ptcls.hdf',
'BPV_1387_ptcls.hdf',
'BPV_1388_ptcls.hdf']
partSet = SetOfParticles(filename=':memory:')
for fn in stackFiles:
particle = Particle()
particle.setLocation(1, self.ds.getFile('particles/%s' % fn))
partSet.append(particle)
outputDir = self.getOutputPath()
filesDict = convertBinaryFiles(partSet, outputDir)
partSet.close()
print filesDict