:>"^|ã@s0dZddlmZGdd„deƒZdS)z'Chain class, used in Structure objects.é)ÚEntityc@s¾eZdZdZdd„Zdd„Zdd„Zdd „Zd d „Zd d „Z dd„Z dd„Z dd„Z dd„Z dd„Zdd„Zdd„Zdd„ZdS)ÚChainz‰Define Chain class. Chain is an object of type Entity, stores residues and includes a method to access atoms from residues. cCsd|_tj||ƒdS)zInitialize the class.ÚCN)ÚlevelrÚ__init__)ÚselfÚid©r ú2/tmp/pip-build-ww9dw3qa/biopython/Bio/PDB/Chain.pyrs zChain.__init__cCsnt|tƒrf|jdkr1|jdkr1dS|jdkrS|jdkrSdS|j|jkSntSdS)z(Validate if id is greater than other.id.ú réN)Ú isinstancerrÚNotImplemented)rÚotherr r r Ú__gt__sz Chain.__gt__cCsnt|tƒrf|jdkr1|jdkr1dS|jdkrS|jdkrSdS|j|jkSntSdS)z1Validate if id is greater or equal than other.id.r rr N)r rrr)rrr r r Ú__ge__&sz Chain.__ge__cCsnt|tƒrf|jdkr1|jdkr1dS|jdkrS|jdkrSdS|j|jkSntSdS)z%Validate if id is less than other.id.r rr N)r rrr)rrr r r Ú__lt__2sz Chain.__lt__cCsnt|tƒrf|jdkr1|jdkr1dS|jdkrS|jdkrSdS|j|jkSntSdS)z.Validate if id is less or equal than other id.r rr N)r rrr)rrr r r Ú__le__>sz Chain.__le__cCs"t|tƒrd|df}|S)aTranslate sequence identifier to tuple form (PRIVATE). A residue id is normally a tuple (hetero flag, sequence identifier, insertion code). Since for most residues the hetero flag and the insertion code are blank (i.e. " "), you can just use the sequence identifier to index a residue in a chain. The _translate_id method translates the sequence identifier to the (" ", sequence identifier, " ") tuple. Arguments: - id - int, residue resseq r )r Úint)rrr r r Ú _translate_idJszChain._translate_idcCs|j|ƒ}tj||ƒS)a!Return the residue with given id. The id of a residue is (hetero flag, sequence identifier, insertion code). If id is an int, it is translated to (" ", id, " ") by the _translate_id method. Arguments: - id - (string, int, string) or int )rrÚ __getitem__)rrr r r r\s zChain.__getitem__cCs|j|ƒ}tj||ƒS)z…Check if a residue with given id is present in this chain. Arguments: - id - (string, int, string) or int )rrÚ __contains__)rrr r r rjszChain.__contains__cCs|j|ƒ}tj||ƒS)zWDelete item. Arguments: - id - (string, int, string) or int )rrÚ __delitem__)rrr r r rtszChain.__delitem__cCsd|jƒS)zReturn the chain identifier.z )Zget_id)rr r r Ú__repr__~szChain.__repr__cCsgg}xZ|jƒD]L}|jƒdkrRx1|jƒD]}|j|ƒq8Wq|j|ƒqW|S)zçReturn a list of undisordered residues. Some Residue objects hide several disordered residues (DisorderedResidue objects). This method unpacks them, ie. it returns a list of simple Residue objects. é)Zget_listZ is_disorderedZdisordered_get_listÚappend)rZ unpacked_listZresidueZdresiduer r r Úget_unpacked_list„szChain.get_unpacked_listcCs|j|ƒ}tj||ƒS)a0Return 1 if a residue with given id is present. The id of a residue is (hetero flag, sequence identifier, insertion code). If id is an int, it is translated to (" ", id, " ") by the _translate_id method. Arguments: - id - (string, int, string) or int )rrÚhas_id)rrr r r r”s z Chain.has_idccsx|D] }|VqWdS)zReturn residues.Nr )rÚrr r r Ú get_residues¥s zChain.get_residuesccs1x*|jƒD]}x|D] }|VqWq WdS)zReturn atoms from residues.N)r)rrÚar r r Ú get_atomsªs zChain.get_atomsN)Ú__name__Ú __module__Ú __qualname__Ú__doc__rrrrrrrrrrrrrr!r r r r r s        rN)r%ZBio.PDB.Entityrrr r r r Ús