diff options
| -rw-r--r-- | debian/changelog | 7 | ||||
| -rw-r--r-- | debian/copyright | 2 | ||||
| -rw-r--r-- | debian/patches/pandas-2.0.patch | 20 | ||||
| -rw-r--r-- | debian/patches/series | 1 | ||||
| -rw-r--r-- | pauvre/functions.py | 4 |
5 files changed, 31 insertions, 3 deletions
diff --git a/debian/changelog b/debian/changelog index d7120da..9ae1f9b 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,10 @@ +python-pauvre (0.2.3-3) unstable; urgency=medium + + * pandas-2.0.patch: new: fix ftbfs with pandas 2.0. (Closes: #1044070) + * d/copyright: bump packaging copyright year. + + -- Étienne Mollier <emollier@debian.org> Wed, 06 Sep 2023 22:18:51 +0200 + python-pauvre (0.2.3-2) unstable; urgency=medium * biopython-1.80.patch: add; migrate away from Bio.SubsMat. diff --git a/debian/copyright b/debian/copyright index c7a3d2b..fcac93f 100644 --- a/debian/copyright +++ b/debian/copyright @@ -9,7 +9,7 @@ License: GPL-3+ Files: debian/* Copyright: 2020 Andreas Tille <tille@debian.org> 2021 Nilesh Patra <nilesh@debian.org> - 2020-2022 Étienne Mollier <emollier@debian.org> + 2020-2023 Étienne Mollier <emollier@debian.org> License: GPL-3+ License: GPL-3+ diff --git a/debian/patches/pandas-2.0.patch b/debian/patches/pandas-2.0.patch new file mode 100644 index 0000000..f04688f --- /dev/null +++ b/debian/patches/pandas-2.0.patch @@ -0,0 +1,20 @@ +Description: fix test failure with pandas 2.0 +Author: Étienne Mollier <emollier@debian.org> +Bug-Debian: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1044070 +Forwarded: https://github.com/conchoecia/pauvre/pull/47 +Last-Update: 2023-09-06 +--- +This patch header follows DEP-3: http://dep.debian.net/deps/dep3/ +--- python-pauvre.orig/pauvre/functions.py ++++ python-pauvre/pauvre/functions.py +@@ -72,8 +72,8 @@ + self.features = pd.read_csv(self.filename, comment='#', + sep='\t', names=gffnames) + self.features['name'] = self.features['tags'].apply(self._get_name) +- self.features.drop('dunno1', 1, inplace=True) +- self.features.drop('dunno2', 1, inplace=True) ++ self.features.drop('dunno1', axis=1, inplace=True) ++ self.features.drop('dunno2', axis=1, inplace=True) + self.features.reset_index(inplace=True, drop=True) + # warn the user if there are CDS or gene entries not divisible by three + self._check_triplets() diff --git a/debian/patches/series b/debian/patches/series index a834f08..a3d7455 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -1,3 +1,4 @@ 2to3.patch lsi-test-args.patch biopython-1.80.patch +pandas-2.0.patch diff --git a/pauvre/functions.py b/pauvre/functions.py index c6ca2b8..d496d15 100644 --- a/pauvre/functions.py +++ b/pauvre/functions.py @@ -72,8 +72,8 @@ class GFFParse(): self.features = pd.read_csv(self.filename, comment='#', sep='\t', names=gffnames) self.features['name'] = self.features['tags'].apply(self._get_name) - self.features.drop('dunno1', 1, inplace=True) - self.features.drop('dunno2', 1, inplace=True) + self.features.drop('dunno1', axis=1, inplace=True) + self.features.drop('dunno2', axis=1, inplace=True) self.features.reset_index(inplace=True, drop=True) # warn the user if there are CDS or gene entries not divisible by three self._check_triplets() |