Package: src:python-skbio
Version: 0.7.3-1
User: [email protected]
Usertags: python3.15
Tags: patch, ftbfs, forky, sid
Severity: important
Hi!
While rebuilding the python related packages against the Python 3.15rc2
version we found that python-skbio fails to build from source [1].
The error is:
super(CompressedMixin, self).__init__(*args, **kwargs)
E io.UnsupportedOperation: File or stream is not readable.
It seems that its open in write only instead of read only as the test
expects, I've created a patch that sets the explicit mode and solves the
problem.
I applied the fix in the sandbox [2] to be able to build the packages
that depend on python-skbio, please consider applying the patch to
support the upcoming 3.15 version.
Setting the severity to important for now. Once Python 3.15 is released,
it will be added to python3-defaults and this bug will become release
critical.
Happy hacking,
[1]: https://debusine.debian.net/debian/r-python-python3.15/artifact/4462291/
[2]: https://debusine.debian.net/debian/r-python-python3.15/
--
"Can you imagine what I would do if I could do all I can?" -- Sun Tzu
Saludos /\/\ /\ >< `/
Description: Explicitly specify mode="rb" in GzipCompressor.get_reader
GzipFile without explicit mode defaults to fileobj.mode (e.g. 'w+b' for
temporary files), causing it to open for writing instead of reading.
Forwarded: not-needed
--- a/skbio/io/_iosources.py
+++ b/skbio/io/_iosources.py
@@ -215,7 +215,7 @@ class GzipCompressor(Compressor):
return self.file.peek(2)[:2] == b"\x1f\x8b"
def get_reader(self):
- return gzip.GzipFile(fileobj=self.file)
+ return gzip.GzipFile(fileobj=self.file, mode="rb")
def get_writer(self):
return gzip.GzipFile(
