ó ö6Ec@sŪddlZddlmZejdƒZddd„ƒYZd„ZedkrŠddlm Z ddl Z e ƒZ e j d e j d ƒZeed d d d ƒndS(iĸĸĸĸN(tPDBIOs [123 ]*H.*t ChainSelectorcBs>eZdZdd„Zd„Zd„Zd„Zd„ZRS(s˜ Only accepts residues with right chainid and between start and end. Remove hydrogens, waters and ligands. Only use model 0 by default. icCs(||_||_||_d|_dS(Ni(tchain_idtstarttendtmodel_id(tselfRRRR((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pyt__init__s   cCs|jƒ|jkrdSdS(Nii(tget_idR(Rtmodel((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pyt accept_modelscCs|jƒ|jkrdSdS(Nii(RR(Rtchain((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pyt accept_chain scCsm|jƒ\}}}|dkr%dS|dkrCdG|jƒGHn|j|ko`|jknridSdS(Nt isWARNING: Icode at i(RRR(Rtresiduet hetatm_flagtresseqticode((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pytaccept_residue%s  "cCs'|jƒ}tj|ƒrdSdSdS(Nii(Rt _hydrogentmatch(Rtatomtname((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pyt accept_atom1s (t__name__t __module__t__doc__RR 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/Dice.pyRs     cCs<t|||ƒ}tƒ}|j|ƒ|j||ƒdS(s1 Write out selected portion to filename. N(RRt set_structuretsave(t structureRRRtfilenametseltio((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pytextract:s  t__main__(t PDBParsertscriR idsout.pdb((tret Bio.PDB.PDBIORtcompileRRR!RtBio.PDB.PDBParserR#tsystpt get_structuretargvts(((s/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Dice.pyts ,