ó ƒå˜[c@`sÀddlmZmZmZmZddlZddlZddlZddlZddl Z ddl Z ddl Z ddl Z ddl Z ddlZejeƒZddd„ƒYZdS(i(tabsolute_importtdivisiontprint_functiontunicode_literalsNt Node_pathcB`sAeZdZd„Zd„Zd„Zd„Zed„ƒZRS(uü Object representation of the connected set of Node objects that represent the reconstructed isoforms graph traversal Instance members: transcript_name : (str) name of the isoform node_obj_list : (list) of Node objects cC`sÖ||_tƒ|_tjd|ƒ}t}tƒ}x™|D]‘}|jdƒ\} } | jdƒ\} } t| ƒ} t| ƒ} |sžt}| d7} n|j || || | d!ƒ} |jj | ƒq=WdS(uV constructor, instantiates Node_path and builds vertices in the graph u \d+:\d+\-\d+u:u-ufstiN( ttranscript_nametlistt node_obj_listtretfindalltFalsetsplittinttTruetget_nodetappend(tselfttgraphRt path_stringtsequencetnode_descr_listtfirst_kmer_flagt obj_node_listt node_descrt loc_node_idtnode_coord_rangetlendtrendtnode_obj((sy/oak/stanford/groups/akundaje/marinovg/programs/trinityrnaseq-Trinity-v2.8.4/Analysis/SuperTranscripts/pylib/Node_path.pyt__init__!s         cC`s|jS(N(R(R((sy/oak/stanford/groups/akundaje/marinovg/programs/trinityrnaseq-Trinity-v2.8.4/Analysis/SuperTranscripts/pylib/Node_path.pytget_transcript_name?scC`s|jS(N(R(R((sy/oak/stanford/groups/akundaje/marinovg/programs/trinityrnaseq-Trinity-v2.8.4/Analysis/SuperTranscripts/pylib/Node_path.pytget_pathBscC`sCtƒ}x$|jD]}|jt|ƒƒqWdj|ƒ}|S(Nu--(RRRtstrtjoin(Rt node_str_listtnodetpath_str((sy/oak/stanford/groups/akundaje/marinovg/programs/trinityrnaseq-Trinity-v2.8.4/Analysis/SuperTranscripts/pylib/Node_path.pyt__repr__Fs  cC`sÙtƒ}|jƒ}xu|D]m}|jƒ}tjd|ƒrtjdd|ƒ}|j|ƒ}|dk r‰|j||fƒq‰qqW|s¤t j dƒ|St j dj |ƒƒt ƒ}tƒ} xB|D]:\} }| j ƒ} |j ƒ} | ddd…} | ddd…}tj|| ƒsJtdj | | ƒƒ‚nt| ƒt| ƒ}|dkr´| | ks„td ƒ‚|j| jƒƒ|g|| <| j| ƒqÓ| d|!}t j d j | | |ƒƒ|j| jƒƒ| |g|| <| j|ƒqÓWx£|D]›}|jƒ}|d}||kr||}t|ƒd krm|d|ds"$