Control: tags -1 upstream Control: forwarded -1 Daniel Müllner <dan...@danifold.net> Thanks
Hi Daniel, as you can see below the Debian packaged version of fastcluster fails its autopkgtest. It would be great if you could comment on this issue. There might be chances that this problem is caused by numpy (version 2.2.4) scipy (version 1.15.2) Any hint how to fix the test issue would be welcome. Kind regards Andreas. The complete information about this bug report can be found here https://bugs.debian.org/1100292 Am Wed, Apr 09, 2025 at 09:24:40AM +0900 schrieb Charles Plessy: > Control: tag -1 help > > Hi all, > > I had a look at the build failure and could reproduce it locally. Here is > an extract from Santiago's report. > > The test failure looks relevant and probably should not ignored. > Unfortunately, the combination of C++ and Python is very, very far from my > expertise. If somebody else can have a look that would be great. > > The alternative is to release without the package and its reverse > dependencies, unless we know that there is no risk to inflict erroneous > computations on our users. > > Have a nice day, > > Charles > > ================================================================================================================== > Fastcluster version: 1.2.6 > Python version: 3.13.2 (main, Feb 5 2025, 01:23:35) [GCC 14.2.0] > running config > dh_auto_build -O--buildsystem=pybuild -O--sourcedirectory=src/python > I: pybuild base:311: /usr/bin/python3 setup.py build > /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:270: > UserWarning: Unknown distribution option: 'test_suite' > warnings.warn(msg) > Fastcluster version: 1.2.6 > Python version: 3.13.2 (main, Feb 5 2025, 01:23:35) [GCC 14.2.0] > running build > running build_py > copying fastcluster.py -> > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build > running build_ext > building '_fastcluster' extension > creating build/temp.linux-x86_64-cpython-313 > x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -fstack-clash-protection -Wformat > -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 > -fPIC -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include > -I/usr/include/python3.13 -c fastcluster_python.cpp -o > build/temp.linux-x86_64-cpython-313/fastcluster_python.o > In file included from fastcluster_python.cpp:38: > ../fastcluster.cpp:53:35: note: ‘#pragma message: Use fenv header.’ > 53 | #pragma message("Use fenv header.") > | ^ > x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -fstack-clash-protection -Wformat > -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 > -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 > -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -fstack-clash-protection -Wformat > -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 > build/temp.linux-x86_64-cpython-313/fastcluster_python.o > -L/usr/lib/x86_64-linux-gnu -o > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build/_fastcluster.cpython-313-x86_64-linux-gnu.so > dh_auto_test -O--buildsystem=pybuild -O--sourcedirectory=src/python > I: pybuild base:311: cd > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build; python3.13 -m > unittest discover -v > test (tests.fastcluster_test.test) ... ok > test_nan (tests.fastcluster_test.test_nan) ... ok > test_vector (tests.fastcluster_test.test_vector) ... FAIL > > ====================================================================== > FAIL: test_vector (tests.fastcluster_test.test_vector) > ---------------------------------------------------------------------- > Traceback (most recent call last): > File > "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build/tests/__init__.py", > line 14, in test_vector > test(10) > ~~~~^^^^ > File > "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build/tests/vectortest.py", > line 236, in test > test_all(n,dim) > ~~~~~~~~^^^^^^^ > File > "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build/tests/vectortest.py", > line 115, in test_all > check(Z2, method, D) > ~~~~~^^^^^^^^^^^^^^^ > File > "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_fastcluster/build/tests/vectortest.py", > line 142, in check > raise AssertionError( > 'Not the global minimum in step {2}: {0}, {1}'. > format(Z2[i,2], gmin,i), squareform(D)) > AssertionError: ('Not the global minimum in step 0: 0.42857142857142855, > 0.0', array([[0. , 0.28571429, 0.14285714, ..., 0.33333333, > 0.14285714, > 0.14285714], > [0.28571429, 0. , 0.14285714, ..., 0.57142857, 0.14285714, > 0.14285714], > [0.14285714, 0.14285714, 0. , ..., 0.42857143, 0. , > 0. ], > ..., > [0.33333333, 0.57142857, 0.42857143, ..., 0. , 0.42857143, > 0.42857143], > [0.14285714, 0.14285714, 0. , ..., 0.42857143, 0. , > 0. ], > [0.14285714, 0.14285714, 0. , ..., 0.42857143, 0. , > 0. ]], shape=(62, 62))) > > ---------------------------------------------------------------------- > Ran 3 tests in 1.095s > > ================================================================================================================== > > -- > Charles Plessy - - ~ ~ ~ ~ ~ ~~~~ ~ ~ ~ ~ ~ - - charles.ple...@oist.jp > Okinawa Institute of Science and Technology Graduate University > Senior staff scientist ~~ Luscombe Unit ~~ https://groups.oist.jp/grsu > Toots from work - ~~ ~~~~ ~~ - https://fediscience.org/@charles_plessy > -- https://fam-tille.de
