[pygr-notify] Issue 54 in pygr: sqlgraph.GraphView unpickle-able error

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Comment #7 on issue 54 by jennyhappeha: sqlgraph.GraphView unpickle-able  
error
http://code.google.com/p/pygr/issues/detail?id=54

Hi Chris,

After adding *OneToOneRelation* to two lines in Data.py as you suggested:

line1
from metabase import ResourceServer, dumps, OneToManyRelation, \
      ManyToManyRelation, PygrDataNotPortableError, PygrDataNotFoundError, \
      PygrDataMismatchError, PygrDataEmptyError, PygrDataReadOnlyError, \
      PygrDataSchemaError, PygrDataNoModuleError, ResourceZone

line2
the __all__ list at the bottom of Data.py


I am able to save a GraphView object to pygr.Data successfully using the  
modified
issue54.py.

Saved GraphView can be accessed via pygr.Data and used as a mapper to  
retrieve target
objects, given a particular source object.

qing at 1[ensembl]$ python -i
Python 2.5.2 (r252:60911, Nov 14 2008, 19:46:32)
[GCC 4.3.2] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> from pygr import sqlgraph
>>> from ensembl import adaptor
>>> import pygr.Data
>>> pygr.Data.dir('Bio.Annotation.Ensembl')
['Bio.Annotation.Ensembl.homo_sapiens_core_47_36i.exonTB',
'Bio.Annotation.Ensembl.homo_sapiens_core_47_36i.translationTB']
>>> translationTB =
pygr.Data.getResource('Bio.Annotation.Ensembl.homo_sapiens_core_47_36i.translationTB')
>>> translation = translationTB[15121]
>>> pygr.Data.dir('Bio.Ensembl')
['Bio.Ensembl.GraphView.homo_sapiens_core_47_36i.translationExons']
>>> translationExons =
pygr.Data.getResource('Bio.Ensembl.GraphView.homo_sapiens_core_47_36i.translationExons')
>>> exons = translationExons[translation]
>>> for e in exons:
...     print e.id
...
95160
95020
95035
95050
95059
95069
95081
95088
95101
95110
95172


Cheers,
Jenny


Attachments:
	issue54.py  1.8 KB

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