pimlico.datatypes.arrays module

Wrappers around Numpy arrays and Scipy sparse matrices.

class NumpyArray(base_dir, pipeline, **kwargs)

Bases: pimlico.datatypes.files.NamedFileCollection

datatype_name = 'numpy_array'

filenames = ['array.npy']

array

get_software_dependencies()

class NumpyArrayWriter(base_dir, additional_name=None)

Bases: pimlico.datatypes.base.PimlicoDatatypeWriter

set_array(array)

class ScipySparseMatrix(base_dir, pipeline, **kwargs)

Bases: pimlico.datatypes.base.PimlicoDatatype

Wrapper around Scipy sparse matrices. The matrix loaded is always in COO format – you probably want to convert to something else before using it. See scipy docs on sparse matrix conversions.

datatype_name = 'scipy_sparse_array'

filenames = ['array.mtx']

array

get_software_dependencies()

class ScipySparseMatrixWriter(base_dir, additional_name=None)

Bases: pimlico.datatypes.base.PimlicoDatatypeWriter

set_matrix(mat)