B b@s0dZGdddZedkr,ddlmZedS)z6Useful utilities for helping in parsing GenBank files.c@s:eZdZdZdgZefddZddZddZd d Zd S) FeatureValueCleanera)Provide specialized capabilities for cleaning up values in features. This class is designed to provide a mechanism to clean up and process values in the key/value pairs of GenBank features. This is useful because in cases like:: /translation="MED YDPWNLRFQSKYKSRDA" you'll otherwise end up with white space in it. This cleaning needs to be done on a case by case basis since it is impossible to interpret whether you should be concatenating everything (as in translations), or combining things with spaces (as might be the case with /notes). >>> cleaner = FeatureValueCleaner(["translation"]) >>> cleaner FeatureValueCleaner(['translation']) >>> cleaner.clean_value("translation", "MED\nYDPWNLRFQSKYKSRDA") 'MEDYDPWNLRFQSKYKSRDA' Z translationcCs ||_dS)z-Initialize with the keys we should deal with.N) _to_process)selfZ to_processr0lib/python3.7/site-packages/Bio/GenBank/utils.py__init__#szFeatureValueCleaner.__init__cCs|jjd|jdS)z,Return a string representation of the class.()) __class____name__r)rrrr__repr__'szFeatureValueCleaner.__repr__cCsL||jkrHyt|d|}Wn"tk r>td|dYnX||}|S)zClean the specified value and return it. If the value is not specified to be dealt with, the original value will be returned. z _clean_%szNo function to clean key: %sN)rgetattrAttributeErrorAssertionError)rZkey_namevalueZcleanerrrr clean_value+s  zFeatureValueCleaner.clean_valuecCs|}d|S)zEConcatenate a translation value to one long protein string (PRIVATE).)splitjoin)rrZtranslation_partsrrr_clean_translation;sz&FeatureValueCleaner._clean_translationN) r __module__ __qualname____doc__Zkeys_to_processrr rrrrrrr s  r__main__) run_doctestN)rrr Z Bio._utilsrrrrrs8