Removed blast_xml.py. Now we are relying on the upstream-mantained ve…

…rsion in BioPython (Bio.SearchIO). This should give a massive boost to EI-CoreBioinformatics#137
lucventurini · Nov 2, 2018 · 006c090 · 006c090
1 parent 95d290a
commit 006c090
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Showing 2 changed files with 3 additions and 937 deletions.
diff --git a/Mikado/parsers/blast_utils.py b/Mikado/parsers/blast_utils.py
@@ -17,7 +17,8 @@
 import logging
 from . import HeaderError
 from ..utilities.log_utils import create_null_logger
-from .blast_xml import BlastXmlParser as xparser
+from Bio.SearchIO.BlastIO.blast_xml import BlastXmlParser as xparser
+# from .blast_xml import BlastXmlParser as xparser
 from ..utilities import overlap
 import xml.etree.ElementTree
 import numpy as np
@@ -105,7 +106,7 @@ def __iter__(self):
     def __next__(self):
         if self.__handle is None:
             raise ValueError("Invalid handle")
-        return next(self.parser)
+        return next(iter(self.parser))
 
     @property
     def handle(self):