:>"^h@sRdZddlmZGdddeZddZGdddeZd S) aqHandle the SCOP CLAssification file, which describes SCOP domains. The file format is described in the scop "release notes.":http://scop.mrc-lmb.cam.ac.uk/scop/release-notes.html The latest CLA file can be found "elsewhere at SCOP.":http://scop.mrc-lmb.cam.ac.uk/scop/parse/ "Release 1.73": http://scop.mrc-lmb.cam.ac.uk/scop/parse/dir.cla.scop.txt_1.73 (July 2008) )Residuesc@s=eZdZdZdddZddZddZdS) RecordaLHolds information for one SCOP domain. Attributes: - sid - SCOP identifier. e.g. d1danl2 - residues - The domain definition as a Residues object - sccs - SCOP concise classification strings. e.g. b.1.2.1 - sunid - SCOP unique identifier for this domain - hierarchy - A dictionary, keys are nodetype, values are sunid, describing the location of this domain in the SCOP hierarchy. See the Scop module for a description of nodetypes. This used to be a list of (key,value) tuples in older versions of Biopython (see Bug 3109). NcCsDd|_d|_d|_d|_i|_|r@|j|dS)zInitialize the class.N)sidresiduessccssunid hierarchy_process)selfliner 1/tmp/pip-build-ww9dw3qa/biopython/Bio/SCOP/Cla.py__init__'s     zRecord.__init__c Cs|j}|jd}t|dkr=td||\|_}}|_|_}tj||_||j_ t |j|_x?|jdD].}|jd\}}t ||j |Jsz!Record.__str__..r ) appendrrrrrrrr itemsmap)r sr r r__str__@s zRecord.__str__)__name__ __module__ __qualname____doc__rr r'r r r rrs  rccs2x+|D]#}|jdrqt|VqWdS)zmIterate over a CLA file as Cla records for each line. Arguments: - handle - file-like object. #N) startswithr)handler r r rparseQs r/c@s.eZdZdZddZddZdS)Indexz?A CLA file indexed by SCOP identifiers for rapid random access.c Cstj|||_t|jdp}d}x`|j}|sGP|jdrYq4t|}|j}|dk r|||<|j}q4WWdQRXdS)zWCreate CLA index. Arguments: - filename - The file to index rUr,N) dictrfilenameopenreadliner-rrtell)r r4fpositionr recordrr r rras       zIndex.__init__c CsWtj||}t|jd,}|j||j}t|}WdQRX|S)z%Return an item from the indexed file.r1N)r3 __getitem__r5r4seekr6r)r rr9r8r r:r r rr;xs   zIndex.__getitem__N)r(r)r*r+rr;r r r rr0^s  r0N)r+rrobjectrr/r3r0r r r rs: