pyrox.dev
lol
python3Packages.biopython: 1.83 -> 1.85
+2
-26
-18
pkgs/development/python-modules/biopython/close_parser_on_time.patch
-18
pkgs/development/python-modules/biopython/close_parser_on_time.patch
···
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-
diff --git a/Bio/SeqIO/SeqXmlIO.py b/Bio/SeqIO/SeqXmlIO.py
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index 8fe75ebb728..6758317d05f 100644
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--- a/Bio/SeqIO/SeqXmlIO.py
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+++ b/Bio/SeqIO/SeqXmlIO.py
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@@ -498,11 +498,12 @@ def iterate(self, handle):
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if not text:
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break
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parser.feed(text)
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+ # Closing the parser ensures that all XML data fed into it are processed
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+ parser.close()
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# We have reached the end of the XML file;
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# send out the remaining records
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yield from records
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records.clear()
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- parser.close()
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-
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class SeqXmlWriter(SequenceWriter):
+2
-8
pkgs/development/python-modules/biopython/default.nix
+2
-8
pkgs/development/python-modules/biopython/default.nix
···
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buildPythonPackage rec {
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pname = "biopython";
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-
version = "1.83";
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+
version = "1.85";
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pyproject = true;
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disabled = pythonOlder "3.9";
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src = fetchPypi {
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inherit pname version;
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-
hash = "sha256-eOa/t43mMDQDev01/nfLbgqeW2Jwa+z3in2SKxbtg/c=";
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+
hash = "sha256-Xa+rdAWd5OePSfa1aE7drm585G8Jz6BZwdEznoseoKY=";
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};
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-
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patches = [
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# cherry-picked from https://github.com/biopython/biopython/commit/3f9bda7ef44f533dadbaa0de29ac21929bc0b2f1
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# fixes SeqXMLIO parser to process all data. remove on next update
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./close_parser_on_time.patch
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];
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build-system = [ setuptools ];
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