silent_file_map

pyrosetta.io.silent_file_map._open_gzip_compressed(f)

pyrosetta.io.silent_file_map._open_bz2_compressed(f)

pyrosetta.io.silent_file_map.open_compressed(filename)

Open a possibly compressed file or stream as a decompressed file object. Checks for gzip/bz2 prefix bytes and returns a decompression stream if needed. filename - str filename or file object supporting seek

class pyrosetta.io.silent_file_map.SilentFilePoseAccessor(sdata)

Bases: Mapping

Map class providing read-only pose access to protein silent file data.

__init__(sdata)

Initialize pose accessor Args:

sdata - SilentFileData instance

keys()

Return list of all tags in silent file data.

_abc_impl = <_abc._abc_data object>

get(k[, d]) → D[k] if k in D, else d.  d defaults to None.

items() → a set-like object providing a view on D's items

values() → an object providing a view on D's values

class pyrosetta.io.silent_file_map.SilentFileEnergyAccessor(sdata)

Bases: Mapping

Map class providing read-only energies access to protein silent file data.

__init__(sdata)

Initialize energies accessor Args:

sdata - SilentFileData instance

keys()

Return list of all tags in silent file data.

_abc_impl = <_abc._abc_data object>

get(k[, d]) → D[k] if k in D, else d.  d defaults to None.

items() → a set-like object providing a view on D's items

values() → an object providing a view on D's values

class pyrosetta.io.silent_file_map.SilentFileMap(filename=None, data=None)

Bases: MutableMapping

Map class providing key-value interface to silent file data.

__init__(filename=None, data=None)

Initialize mapping over given filename or silent file data. filename - Read silent data from given file if data not provided, default path for write. data - String silent file data to load.

property tags

Return list of all tags in silent file data.

property poses

Return SilentFilePoseAccessor over silent file map.

property energies

Return SilentFileEnergiesAccessor over silent file map.

write_file(filename=None, force=False)

Write file to given filename.

_abc_impl = <_abc._abc_data object>

clear() → None.  Remove all items from D.

get(k[, d]) → D[k] if k in D, else d.  d defaults to None.

items() → a set-like object providing a view on D's items

keys() → a set-like object providing a view on D's keys

pop(k[, d]) → v, remove specified key and return the corresponding value.

If key is not found, d is returned if given, otherwise KeyError is raised.

popitem() → (k, v), remove and return some (key, value) pair

as a 2-tuple; but raise KeyError if D is empty.

setdefault(k[, d]) → D.get(k,d), also set D[k]=d if k not in D

update([E, ]**F) → None.  Update D from mapping/iterable E and F.

If E present and has a .keys() method, does: for k in E: D[k] = E[k] If E present and lacks .keys() method, does: for (k, v) in E: D[k] = v In either case, this is followed by: for k, v in F.items(): D[k] = v

values() → an object providing a view on D's values