ó "˜ÎIc@sVddlmZddlmZmZdZdd d„ƒYZdd d„ƒYZdS( iÿÿÿÿ(tcopy(tPDBConstructionExceptiont PDBExceptionsˆ Base class for Residue, Chain, Model and Structure classes. It is a simple container class, with list and dictionary like properties. tEntitycBs•eZdZd„Zd„Zd„Zd„Zd„Zd„Zd„Z d„Z d „Z d „Z d „Z d „Zd „Zd„Zd„ZRS(s… Basic container object. Structure, Model, Chain and Residue are subclasses of Entity. It deals with storage and lookup. cCs:||_d|_d|_g|_i|_i|_dS(N(tidtNonetfull_idtparentt child_listt child_dicttxtra(tselfR((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt__init__s      cCs t|jƒS(sReturn the number of children.(tlenR(R ((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt__len__ scCs |j|S(sReturn the child with given id.(R (R R((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt __getitem__$sccsx|jD] }|Vq WdS(sIterate over children.N(R(R tchild((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt__iter__(scCs|jS(sƒReturn level in hierarchy. A - atom R - residue C - chain M - model S - structure (tlevel(R ((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt get_level/s cCs ||_dS(sSet the parent Entity object.N(R(R tentity((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt set_parent:scCs d|_dS(sDetach the parent.N(RR(R ((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt detach_parent>scCs5|j|}|jƒ|j|=|jj|ƒdS(sRemove a child.N(R RRtremove(R RR((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Entity.pyt detach_childBs   cCsb|jƒ}|j|ƒr4tdt|ƒƒ‚n|j|ƒ|jj|ƒ||j|sz