cvxopt may be installed systemwide, but Sage does not use Python packages from the system.
"make cvxopt-uninstall cvxopt" should fix the problem On Tuesday, August 1, 2023 at 12:38:04 PM UTC-7 emanuel.c...@gmail.com wrote: > Le mardi 1 août 2023 à 13:42:40 UTC+2, Dima Pasechnik a écrit : > > On Tue, Aug 1, 2023 at 11:54 AM Emmanuel Charpentier > <emanuel.c...@gmail.com> wrote: > > > > On Debian testing, upgarding 10.1.beta7 to 10.1.beta8 and running > prestlong gave a raft of new failures : > > > > ---------------------------------------------------------------------- > sage -t --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/doctest/test.py # 1 doctest failed # Passes standalone sage -t > --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/graphs/generators/classical_geometries.py # 3 doctests failed # > Permanent sage -t --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/combinat/posets/posets.py # 1 doctest failed # Permanent sage -t > --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/matrix/matrix2.pyx # 2 doctests failed # Permanent sage -t --long > --warn-long 219.5 --random-seed=26277986705114085533763530404370933785 > src/sage/coding/linear_code.py # 2 doctests failed # Permanent sage -t > --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/numerical/optimize.py # 8 doctests failed # Permanent sage -t > --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/coding/code_constructions.py # 1 doctest failed # Permanent sage > -t --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/numerical/sdp.pyx # 34 doctests failed # Permanent sage -t --long > --warn-long 219.5 --random-seed=26277986705114085533763530404370933785 > src/sage/numerical/backends/cvxopt_sdp_backend.pyx # 21 doctests failed # > Permanent sage -t --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/matrix/matrix_double_sparse.pyx # 9 doctests failed # Permanent > sage -t --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/sage/numerical/backends/cvxopt_backend.pyx # 17 doctests failed # > Permanent sage -t --long --warn-long 219.5 > --random-seed=26277986705114085533763530404370933785 > src/doc/en/thematic_tutorials/numerical_sage/cvxopt.rst # 8 doctests failed > # Permanent > ---------------------------------------------------------------------- > > > > Most of them may be related to outdated references to libcholmod.so.3 > (my locate database may have been out of date). I’ll reconfigure and retry. > > if you used systemwide sparsesuite (libcholmod is there) and updated > it, you'd need to rebuild everything that uses it. > Specifically, only cvxopt, it seems. > > Indeed : recompiling after reconfigiring locate was inefficient. > > I’m stuck : both cvxopt and suitesparse are installed systemwide : > charpent@zen-book-flip:/usr/local/sage-10$ dpkg -l "*suitesparse*" > Souhait=inconnU/Installé/suppRimé/Purgé/H=à garder | > État=Non/Installé/fichier-Config/dépaqUeté/échec-conFig/H=semi-installé/W=att> > > |/ Err?=(aucune)/besoin Réinstallation (État,Err: majuscule=mauvais) ||/ > Nom Version Architecture Description > +++-===========================-==============-============-===================> > > ii libsuitesparse-dev:amd64 1:7.1.0+dfsg-2 amd64 libraries for spars> ii > libsuitesparseconfig7:amd64 1:7.1.0+dfsg-2 amd64 configuration routi> > charpent@zen-book-flip:/usr/local/sage-10$ dpkg -l "*cvxopt*" > Souhait=inconnU/Installé/suppRimé/Purgé/H=à garder | > État=Non/Installé/fichier-Config/dépaqUeté/échec-conFig/H=semi-installé/W=att> > > |/ Err?=(aucune)/besoin Réinstallation (État,Err: majuscule=mauvais) ||/ > Nom Version Architecture Description > +++-=================-===============-============-============================> > > ii python-cvxopt-doc 1.3.0+dfsg-1 all Python package for convex op> ii > python3-cvxopt 1.3.0+dfsg-1+b2 amd64 Python3 package for convex o> > > And the *effective* installation seems to conform : > charpent@zen-book-flip:/usr/local/sage-10$ ls -l > /usr/lib/x86_64-linux-gnu/libcholmod* -rw-r--r-- 1 root root 1807448 16 > juil. 19:13 /usr/lib/x86_64-linux-gnu/libcholmod.a lrwxrwxrwx 1 root root > 15 16 juil. 19:13 /usr/lib/x86_64-linux-gnu/libcholmod.so -> > libcholmod.so.4 lrwxrwxrwx 1 root root 19 16 juil. 19:13 > /usr/lib/x86_64-linux-gnu/libcholmod.so.4 -> libcholmod.so.4.0.4 -rw-r--r-- > 1 root root 1226816 16 juil. 19:13 > /usr/lib/x86_64-linux-gnu/libcholmod.so.4.0.4 > charpent@zen-book-flip:/usr/local/sage-10$ find . -iname "libcholmod*" > charpent@zen-book-flip:/usr/local/sage-10$ > > I do not understand why Sage looks for libcholmod.so.3 : > File "src/sage/matrix/matrix2.pyx", line 12741, in > sage.matrix.matrix2.Matrix.cholesky Failed example: A.cholesky() Exception > raised: Traceback (most recent call last): File > "/usr/local/sage-10/src/sage/doctest/forker.py", line 709, in _run > self.compile_and_execute(example, compiler, test.globs) File > "/usr/local/sage-10/src/sage/doctest/forker.py", line 1144, in > compile_and_execute exec(compiled, globs) File "<doctest > sage.matrix.matrix2.Matrix.cholesky[60]>", line 1, in <module> A.cholesky() > File "sage/matrix/matrix_double_sparse.pyx", line 197, in > sage.matrix.matrix_double_sparse.Matrix_double_sparse.cholesky from cvxopt > import cholmod, spmatrix, matrix as cvxopt_matrix ImportError: > libcholmod.so.3: cannot open shared object file: No such file or directory > > configure does not seem to be able to force a local installation of > cvxopt. > > Hints ? > > Do you need the logs ? I have to post differently (Googne groups doe not > accept attachments…). > > > > > > > > Le dimanche 30 juillet 2023 à 16:25:06 UTC+2, Volker Braun a écrit : > >> > >> As always, you can get the latest beta version from the "develop" git > branch. Alternatively, the self-contained source tarball is at > http://www.sagemath.org/download-latest.html > >> > >> > >> 26f5a09baf7 (tag: 10.1.beta8, github/develop) Updated SageMath version > to 10.1.beta8 > >> 79dc3510abb gh-35997: Improve getting matrix entries after permutation > in _palp_PM_max() > >> 845963ced07 gh-35977: Move hilbert_numerator test to its proper place > >> fb1648e79fc gh-35974: `src/sage/schemes/projective/proj_bdd_height.py`: > Fix markup > >> 2f604dd785d gh-35965: Minor changes in is_chordal > >> dd82378cbbe gh-35962: Fix documentation formatting problem: > kRegularSequence.partial_sums > >> 448341b2c7c gh-35957: `sage.rings.function_field`: Update `# needs` > >> ce5b249d4d0 gh-35956: Fix several issues in find_hamiltonian > >> 4279c4e326e gh-35943: `sage.combinat.designs`: Modularization fixes, > update `# needs` > >> 4eb3fcb81a7 gh-35904: Make SubgraphSearch robust to vertex labels > >> f85e7b8b192 gh-35900: complex_dynamics, fix: mandelbrot_plot throws > exception for z^2*(z-c) + c > >> 66baa6a2638 gh-35896: deal with bad chosen representations of k-regular > sequences > >> a48b7b81c28 gh-35891: Deprecate sorting by default in connected > component methods for graphs > >> 8b3883de7fd gh-35881: `sage.groups.perm_gps.partn_ref*`: Modularization > fixes > >> f2abd5af51f gh-35749: Add style guide / reference for `# optional - > sage....` doctest tags, extend `sage -t` and `sage -fixdoctests` for > modularization tasks > >> 3a51d8ca597 gh-35661: New modularized distributions > sagemath-{sirocco,bliss,meataxe,mcqd,coxeter3,tdlib} > >> 1436ea2cbe7 gh-35057: Implement basic j-invariants of Drinfeld modules > >> 543f8d62b08 (tag: 10.1.beta7) Updated SageMath version to 10.1.beta7 > > > > -- > > You received this message because you are subscribed to the Google > Groups "sage-release" group. > > To unsubscribe from this group and stop receiving emails from it, send > an email to sage-release...@googlegroups.com. > > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-release/17f0c70b-294e-4518-89fa-407e8653e8dfn%40googlegroups.com. > > > > -- You received this message because you are subscribed to the Google Groups "sage-release" group. 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