is a Python-enhanced molecular graphics tool. It excels at 3D visualization of proteins, small molecules, density, surfaces, and trajectories. It also includes molecular editing, ray tracing, and movies. Open Source version.
| pkl.py (pymol-v1.8.6.0.tar.bz2) | : | pkl.py (pymol-v2.1.0.tar.bz2) |
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| | |
| skipping to change at line 21 | | skipping to change at line 21 |
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| #-* | | #-* |
| #-* | | #-* |
| #Z* ------------------------------------------------------------------- | | #Z* ------------------------------------------------------------------- |
| | |
| from chempy import Storage | | from chempy import Storage |
| | |
| try: | | try: |
| import cPickle | | import cPickle |
| except ImportError: | | except ImportError: |
| import pickle | | import pickle |
|
| | |
| | # Python 3: Unpickle printable ASCII strings in [TAB, DEL) to unicode, |
| | # and everything else to bytes. |
| | # This uses the Python implementation of pickle, not the fast cpython |
| | # version, which unfortunately is much slower. |
| | |
| | def _decode_string(self, value): |
| | if all(8 < b < 127 for b in value): |
| | return value.decode('ascii') |
| | return value |
| | |
| | pickle._Unpickler._decode_string = _decode_string |
| | |
| | # string pickling backported from Python 2 |
| | |
| | def save_str(self, obj): |
| | from struct import pack |
| | |
| | if self.bin: |
| | if not isinstance(obj, bytes): |
| | obj = obj.encode('utf-8', 'ignore') |
| | n = len(obj) |
| | if n < 256: |
| | self.write(pickle.SHORT_BINSTRING + pack("<B", n) + obj) |
| | else: |
| | self.write(pickle.BINSTRING + pack("<i", n) + obj) |
| | else: |
| | obj_repr = repr(obj).encode('utf-8', 'ignore').lstrip(b'b') |
| | self.write(pickle.STRING + obj_repr + b'\n') |
| | |
| | pickle._Pickler.dispatch[str] = save_str |
| | pickle._Pickler.dispatch[bytes] = save_str |
| | |
| class cPickle: | | class cPickle: |
| dumps = pickle.dumps | | dumps = pickle.dumps |
| dump = pickle.dump | | dump = pickle.dump |
|
| def load(f): | | load = pickle._load |
| return pickle.load(f, errors='ignore') | | |
| def loads(s): | | def loads(s): |
| if not isinstance(s, bytes): | | if not isinstance(s, bytes): |
| s = s.encode(errors='ignore') | | s = s.encode(errors='ignore') |
|
| return pickle.loads(s, errors='ignore') | | return pickle._loads(s) |
| | |
| | @classmethod |
| | def configure_legacy_dump(cls, py2=False): |
| | if py2: |
| | cls.dumps = pickle._dumps |
| | cls.dump = pickle._dump |
| | else: |
| | cls.dumps = pickle.dumps |
| | cls.dump = pickle.dump |
| | |
| class PKL(Storage): | | class PKL(Storage): |
| | |
| def fromFile(self,fname,**params): | | def fromFile(self,fname,**params): |
| fp = self.my_open(fname,'rb') | | fp = self.my_open(fname,'rb') |
| result = cPickle.load(fp) | | result = cPickle.load(fp) |
| fp.close() | | fp.close() |
| return result | | return result |
| | |
| #--------------------------------------------------------------------------- | | #--------------------------------------------------------------------------- |
| | | |
| End of changes. 3 change blocks. |
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| 3 lines changed or deleted | | 45 lines changed or added |
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"Fossies" - the Fresh Open Source Software Archive 