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/ . / VolumeData / pif / pif_format.py / PIF_Data
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Methods
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is_byte_swap_needed
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is_byte_swap_needed ( self, file )
Assume file is positioned at byte 0.
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Exceptions
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SyntaxError, ('First 4 bytes of PIF file %s must be %d, got %d' %( file.name, PIF_MAGIC_NUMBER, mnum ) )
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header_values
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header_values ( self, v )
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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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read_image_header
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read_image_header (
self,
file,
ff,
)
Each image has a file header similar to MRC format headers.
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read_floats
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read_floats (
self,
file,
count,
ff,
)
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check_header_values
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check_header_values (
self,
v,
file_size,
file,
)
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Exceptions
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SyntaxError, ( 'PIF data value type %d not supported ' % m )
SyntaxError, ('Bad PIF grid size (%d,%d,%d)' %(vi [ 'nx' ], vi [ 'ny' ], vi [ 'nz' ] ) )
SyntaxError, ('File size %d too small for grid size (%d,%d,%d)' %(file_size, vi [ 'nx' ], vi [ 'ny' ], vi [ 'nz' ] ) )
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read_values_from_string
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read_values_from_string (
self,
string,
etype,
count,
)
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permute_matrix_to_xyz_axis_order
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permute_matrix_to_xyz_axis_order ( self, matrix )
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read_int32
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read_int32 (
self,
file,
count,
)
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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 C header file mrc.h.
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Exceptions
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SyntaxError, ('int4scaleFstr header value of PIF file %s is not parsable as a float: "%s"' %(file.name, v [ 'int4scaleFstr' ] ) )
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