Mercurial > repos > devteam > blast_datatypes
diff blast.py @ 6:a04cf51612f1 draft
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
author | peterjc |
---|---|
date | Mon, 23 Sep 2013 09:56:10 -0400 |
parents | b3a3ba0c1d47 |
children | de11e1a921c4 |
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--- a/blast.py Wed Mar 20 10:39:27 2013 -0400 +++ b/blast.py Mon Sep 23 09:56:10 2013 -0400 @@ -189,10 +189,13 @@ self.add_composite_file('blastdb.nog', is_binary=True, optional=True) # OID->GI lookup file ( -hash_index or -parse_seqids option of makeblastdb) self.add_composite_file('blastdb.nsd', is_binary=True, optional=True) # sorted sequence accession values ( -hash_index or -parse_seqids option of makeblastdb) self.add_composite_file('blastdb.nsi', is_binary=True, optional=True) # index of sequence accession values ( -hash_index or -parse_seqids option of makeblastdb) +# self.add_composite_file('blastdb.00.idx', is_binary=True, optional=True) # first volume of the MegaBLAST index generated by makembindex +# The previous line should be repeated for each index volume, with filename extensions like '.01.idx', '.02.idx', etc. + self.add_composite_file('blastdb.shd', is_binary=True, optional=True) # MegaBLAST index superheader (-old_style_index false option of makembindex) # self.add_composite_file('blastdb.naa', is_binary=True, optional=True) # index of a WriteDB column for e.g. mask data # self.add_composite_file('blastdb.nab', is_binary=True, optional=True) # data of a WriteDB column # self.add_composite_file('blastdb.nac', is_binary=True, optional=True) # multiple byte order for a WriteDB column -# The last 3 lines should be repeated for each WriteDB column, with filename extensions like ('.nba', '.nbb', '.nbc'), ('.nca', '.ncb', '.ncc'), etc. +# The previous 3 lines should be repeated for each WriteDB column, with filename extensions like ('.nba', '.nbb', '.nbc'), ('.nca', '.ncb', '.ncc'), etc. def display_data(self, trans, data, preview=False, filename=None, to_ext=None, size=None, offset=None, **kwd):