[From nobody Mon Oct 26 07:37:06 2026 Received: (at submit) by bugs.debian.org; 19 Sep 2026 20:11:04 +0000 X-Spam-Checker-Version: SpamAssassin 4.0.1-bugs.debian.org_2005_01_02 (2024-03-25) on buxtehude.debian.org X-Spam-Level: X-Spam-Status: No, score=-116.6 required=4.0 tests=ALL_TRUSTED,BAYES_00, BODY_INCLUDES_PACKAGE,DKIMWL_WL_HIGH,DKIM_SIGNED,DKIM_VALID, DKIM_VALID_AU,DKIM_VALID_EF,FOURLA,FROMDEVELOPER,HAS_PACKAGE,MONEY, SPF_HELO_NONE,SPF_PASS,STOCKLIKE,USER_IN_DKIM_WELCOMELIST autolearn=ham autolearn_force=no version=4.0.1-bugs.debian.org_2005_01_02 X-Spam-Bayes: score:0.0000 Tokens: new, 54; hammy, 150; neutral, 267; spammy, 0. spammytokens: hammytokens:0.000-+--Hx-spam-relays-external:sk:stravin, 0.000-+--H*RT:sk:stravin, 0.000-+--Hx-spam-relays-external:311, 0.000-+--H*RT:311, 0.000-+--H*RT:108 Return-path: <maxy@debian.org> Received: from stravinsky.debian.org ([2001:41b8:202:deb::311:108]:35682) by buxtehude.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <maxy@debian.org>) id 1x81Oq-006Aj0-2P for submit@bugs.debian.org; Sat, 19 Sep 2026 20:11:04 +0000 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debian.org; s=smtpauto.stravinsky; h=X-Debian-User:Content-Type:MIME-Version:Message-ID: Subject:To:From:Date:Reply-To:Cc:Content-Transfer-Encoding:Content-ID: Content-Description:In-Reply-To:References; bh=1/NuYu/tIa51SO1pIiRq5fVrq2kS+Z/sgA943PAnO4M=; b=Uf4sf5NrVa3w3pC2GngHGSVt9D ig7aYNlpTcegs2E6YkQhqaYOgCsvn7hqngvA8ZoOgzzFHHBOjaLDjZ2LefiTaLDlAHuKNgJEpu7gl 3dNF9GUKFomZjVVVeG9etniAUtW9uPuzatCRDZigkwxHP/KpWdsMXCbzZYgghxtKkQkrqgr4g8mPz tNnZFGq0L+wSgiIvu1O3HxLE90b6GEvM22v5woQbjlGqU2lMz/l6NeKm5w5iobm1HGzWRhTaKGNzq dOtkDHnTJ0sbK1utwEXqsI8ESRlIo6oRnn5AFzT8K8zrpn/5yPmBxXWghcX54CpCCFNN3fEpt7Fy4 wkv8RwVg==; Received: from authenticated-user by stravinsky.debian.org with esmtpsa (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <maxy@debian.org>) id 1x81Oo-000toY-2B for submit@bugs.debian.org; Sat, 19 Sep 2026 20:11:03 +0000 Date: Sat, 19 Sep 2026 22:11:01 +0200 From: Maximiliano Curia <maxy@debian.org> To: submit@bugs.debian.org Subject: openbabel: builds only against the default Python version Message-ID: <aq7sVRWXP6xH0aWe@hecuba.gnuservers.com.ar> MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="U65jIap5fPWeVf+W" Content-Disposition: inline X-Debian-User: maxy Delivered-To: submit@bugs.debian.org --U65jIap5fPWeVf+W Content-Type: text/plain; charset=us-ascii; format=flowed Content-Disposition: inline Package: src:openbabel Version: 3.2.0+dfsg-1 User: debian-python@lists.debian.org 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 openbabel only builds against the default Python version. This is a problem because it doesn't build the module for Python 3.15, making packages that depend on it also unable to build for Python 3.15 (for example python-emmet-core). To fix this, I've made a change that makes openbabel build against all supported Python versions. I've applied the fix in the sandbox [1] to verify that both openbabel and the packages that depend on it build successfully. 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/ -- "Can you imagine what I would do if I could do all I can?" -- Sun Tzu Saludos /\/\ /\ >< `/ --U65jIap5fPWeVf+W Content-Type: text/x-diff; charset=us-ascii Content-Disposition: attachment; filename=openbabel_3.2.0+dfsg-1.1.diff diff --git a/debian/changelog b/debian/changelog index 7c6a99d28..374b70963 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,10 @@ +openbabel (3.2.0+dfsg-1.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Build python extensions for all supported python3 versions. + + -- Maximiliano Curia <maxy@debian.org> Fri, 18 Sep 2026 10:20:00 +0200 + openbabel (3.2.0+dfsg-1) unstable; urgency=medium * Upload to unstable diff --git a/debian/control b/debian/control index 9be254797..3b4ae39d1 100644 --- a/debian/control +++ b/debian/control @@ -22,7 +22,7 @@ Build-Depends: cmake, libxml2-dev, pkgconf, python3-all, - python3-dev, + python3-all-dev, python3-setuptools, rapidjson-dev, swig, diff --git a/debian/rules b/debian/rules index 664aae696..902d39ba4 100755 --- a/debian/rules +++ b/debian/rules @@ -1,6 +1,7 @@ #!/usr/bin/make -f --include /usr/share/python3/python.mk +include /usr/share/dpkg/architecture.mk +include /usr/share/dpkg/buildtools.mk DEB_BUILD_PARALLEL ?= $(shell guess_concurrency --require-mem 16G) export PYBUILD_TEST_ARGS=-n $(DEB_BUILD_PARALLEL) @@ -16,6 +17,7 @@ export LDFLAGS := $(shell dpkg-buildflags --get LDFLAGS) DH_AUTO_CONFIGURE_OPTS := -DCMAKE_BUILD_TYPE=None \ -DLIB_SUFFIX=/$(DEB_HOST_MULTIARCH) \ -DPYTHON_BINDINGS=ON -DPYTHON_EXECUTABLE=/usr/bin/python3 \ + -DPYTHON_INSTDIR=/usr/lib/python3/dist-packages \ -DPERL_BINDINGS=ON \ -DOBPERL_INSTALLDIRS=vendor \ -DRUN_SWIG=ON \ @@ -36,9 +38,26 @@ override_dh_auto_configure: override_dh_auto_build: dh_auto_build make -C $(CURDIR)/builddir docs + mkdir -p $(CURDIR)/builddir/scripts + for pyversion in $(PYVERS); do \ + pyinclude=$$(python$$pyversion -c "import sysconfig; print(sysconfig.get_path('include'))"); \ + extsuffix=$$(python$$pyversion -c "import sysconfig; print(sysconfig.get_config_var('EXT_SUFFIX'))"); \ + $(CXX) $(CXXFLAGS) $(CPPFLAGS) -fPIC -shared \ + -I$(CURDIR)/include -I$(CURDIR)/builddir/include -I/usr/include/eigen3 -I$$pyinclude \ + -Wno-deprecated-declarations \ + $(CURDIR)/scripts/python/openbabel/openbabel-python.cpp \ + -o $(CURDIR)/builddir/scripts/_openbabel$$extsuffix \ + $(LDFLAGS) -L$(CURDIR)/builddir/lib/$(DEB_HOST_MULTIARCH) -L$(CURDIR)/builddir/lib -lopenbabel; \ + done override_dh_auto_install: dh_auto_install + rm -f $(CURDIR)/debian/tmp/usr/lib/python3/dist-packages/openbabel/_openbabel.so + for pyversion in $(PYVERS); do \ + extsuffix=$$(python$$pyversion -c "import sysconfig; print(sysconfig.get_config_var('EXT_SUFFIX'))"); \ + install -m 0644 $(CURDIR)/builddir/scripts/_openbabel$$extsuffix \ + $(CURDIR)/debian/tmp/usr/lib/python3/dist-packages/openbabel/; \ + done mkdir --parents $(CURDIR)/debian/tmp/$(PERL_ARCHLIB) mv debian/tmp/usr/lib/$(DEB_HOST_MULTIARCH)/auto debian/tmp/usr/lib/$(DEB_HOST_MULTIARCH)/Chemistry \ $(CURDIR)/debian/tmp/$(PERL_ARCHLIB) diff --git a/debian/tests/control b/debian/tests/control index 9fd0b8bc5..316f90bc0 100644 --- a/debian/tests/control +++ b/debian/tests/control @@ -1,6 +1,7 @@ Tests: python3 Depends: @, + python3-all Restrictions: allow-stderr, rw-build-tree, diff --git a/debian/tests/python3 b/debian/tests/python3 index 823e85705..b9f2faf53 100644 --- a/debian/tests/python3 +++ b/debian/tests/python3 @@ -6,46 +6,48 @@ sed -i 's/"\.\."/"\/usr"/' test/testbabel.py arch=$(dpkg --print-architecture) fails= -for TEST in test/test*.py -do - fail_on_failure=true - case $TEST in - test/testroundtrip.py) - # timesout? - echo "Skipping ${TEST} ..." - continue;; - test/testdistgeom.py) - # timesout and exhausts memory - echo "Skipping ${TEST} ..." - continue;; - test/testbindings.py) - case "$arch" in - amd64) - true;; - *) - fail_on_failure=false;; - esac;; - test/testsym.py) - # on most/all non-amd64 architecture it fails - # if it finishes at all, it takes a very long time - # on worker13, the test takes 1000 times longer than on other amd64 hosts - echo "Skipping ${TEST} ..." - continue;; - test/testobconv_writers.py) - case "$arch" in arm64|i386|ppc64el|s390x) - fail_on_failure=false;; - esac;; - esac - echo "Running ${TEST} ..." - if python3 ${TEST}; then - : - else - if [ $fail_on_failure = "false" ] ; then - echo "Ignoring ${TEST} on $arch ..." - else - fails="$fails $TEST" - fi - fi +for pyversion in $(py3versions -s); do + for TEST in test/test*.py + do + fail_on_failure=true + case $TEST in + test/testroundtrip.py) + # timesout? + echo "Skipping ${TEST} ..." + continue;; + test/testdistgeom.py) + # timesout and exhausts memory + echo "Skipping ${TEST} ..." + continue;; + test/testbindings.py) + case "$arch" in + amd64) + true;; + *) + fail_on_failure=false;; + esac;; + test/testsym.py) + # on most/all non-amd64 architecture it fails + # if it finishes at all, it takes a very long time + # on worker13, the test takes 1000 times longer than on other amd64 hosts + echo "Skipping ${TEST} ..." + continue;; + test/testobconv_writers.py) + case "$arch" in arm64|i386|ppc64el|s390x) + fail_on_failure=false;; + esac;; + esac + echo "Running ${TEST} with ${pyversion} ..." + if ${pyversion} ${TEST}; then + : + else + if [ $fail_on_failure = "false" ] ; then + echo "Ignoring ${TEST} on $arch with ${pyversion} ..." + else + fails="$fails ${TEST}(${pyversion})" + fi + fi + done done if [ -n "$fails" ]; then --U65jIap5fPWeVf+W-- ]