diff blast.py @ 6:a04cf51612f1 draft

Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader

--- 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):