pkgs/development/python-modules/biopython/close_parser_on_time.patch at fix-function-merge · tjh.dev/nixpkgs

tjh.dev / nixpkgs

Clone of https://github.com/NixOS/nixpkgs.git (to stress-test knotserver)

nixpkgs / pkgs / development / python-modules / biopython / close_parser_on_time.patch

at fix-function-merge 600 B view raw

 1diff --git a/Bio/SeqIO/SeqXmlIO.py b/Bio/SeqIO/SeqXmlIO.py
 2index 8fe75ebb728..6758317d05f 100644
 3--- a/Bio/SeqIO/SeqXmlIO.py
 4+++ b/Bio/SeqIO/SeqXmlIO.py
 5@@ -498,11 +498,12 @@ def iterate(self, handle):
 6             if not text:
 7                 break
 8             parser.feed(text)
 9+        # Closing the parser ensures that all XML data fed into it are processed
10+        parser.close()
11         # We have reached the end of the XML file;
12         # send out the remaining records
13         yield from records
14         records.clear()
15-        parser.close()
16 
17 
18 class SeqXmlWriter(SequenceWriter):