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/ . / VolumeData / spider / spider_format.py / SPIDER_Data
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Methods
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read_matrix
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read_matrix (
self,
ijk_origin,
ijk_size,
ijk_step,
progress,
)
Reads a submatrix from a potentially very large file.
Returns 3D NumPy matrix with zyx index order.
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check_header_values
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check_header_values (
self,
v,
file_size,
)
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Exceptions
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SyntaxError, "SPIDER image stacks not supported."
SyntaxError, ('SPIDER data format %f != 3 (volume data)' % v [ 'iform' ] )
SyntaxError, ('Bad SPIDER grid size (%.0f,%.0f,%.0f)' %(v [ 'nslice' ], v [ 'nrow' ], v [ 'nsam' ] ) )
SyntaxError, ('File size %d too small for grid size (%.0f,%.0f,%.0f) and data offset %.0f' %(file_size, v [ 'nslice' ], v [ 'nrow' ], v [ 'nsam' ], v [ 'labbyt' ] ) )
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need_byte_swap
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need_byte_swap ( self, file )
Infer file byte order from format value.
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Exceptions
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SyntaxError, 'File is not SPIDER volume data.\nBytes 16-19 do not hold float 3 or byte swapped float 3.'
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__init__
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__init__ ( self, path )
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read_header_values
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read_header_values ( self, file )
Format derived from spider_format.html documentation.
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