python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite #327444

doronbehar · 2024-07-15T18:08:21Z

So I tried to use mpi4py as a dependency for a certain Python package, and I encountered a segmentation fault (the details of it don't matter now). I then read the expression of mpi4py:

https://github.com/NixOS/nixpkgs/blob/be6ca51c35ce13ea1b8365aa95946f3643b58db2/pkgs/development/python-modules/mpi4py/default.nix

And it is very weird! Since when do we need to run setup.py like that as if it's the dawn of Nixpkgs? Also, the build log reflects there's a build error which is ignored. Quoting part of the latest build log from Hydra:

checking for library 'lmpe' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -llmpe -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -llmpe: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
building 'mpe' dylib library
creating build/temp.linux-x86_64-cpython-312
creating build/temp.linux-x86_64-cpython-312/src
creating build/temp.linux-x86_64-cpython-312/src/lib-pmpi
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c src/lib-pmpi/mpe.c -o build/temp.linux-x86_64-cpython-312/src/lib-pmpi/mpe.o
creating build/lib.linux-x86_64-cpython-312/mpi4py/lib-pmpi
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -shared -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -Wl,--no-as-needed build/temp.linux-x86_64-cpython-312/src/lib-pmpi/mpe.o -o build/lib.linux-x86_64-cpython-312/mpi4py/lib-pmpi/libmpe.so
checking for library 'vt-mpi' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -lvt-mpi -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -lvt-mpi: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
checking for library 'vt.mpi' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -lvt.mpi -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -lvt.mpi: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
building 'vt' dylib library
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c src/lib-pmpi/vt.c -o build/temp.linux-x86_64-cpython-312/src/lib-pmpi/vt.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -shared -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -Wl,--no-as-needed build/temp.linux-x86_64-cpython-312/src/lib-pmpi/vt.o -o build/lib.linux-x86_64-cpython-312/mpi4py/lib-pmpi/libvt.so
checking for library 'vt-mpi' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -lvt-mpi -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -lvt-mpi: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
checking for library 'vt.mpi' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -lvt.mpi -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -lvt.mpi: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
building 'vt-mpi' dylib library
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c src/lib-pmpi/vt-mpi.c -o build/temp.linux-x86_64-cpython-312/src/lib-pmpi/vt-mpi.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -shared -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -Wl,--no-as-needed build/temp.linux-x86_64-cpython-312/src/lib-pmpi/vt-mpi.o -o build/lib.linux-x86_64-cpython-312/mpi4py/lib-pmpi/libvt-mpi.so
checking for library 'vt-hyb' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -lvt-hyb -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -lvt-hyb: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
checking for library 'vt.ompi' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -lvt.ompi -o _configtest
/nix/store/2p1sq1nr09xr3xb1a9lrjgdanvk1aakb-binutils-2.42/bin/ld: cannot find -lvt.ompi: No such file or directory
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
building 'vt-hyb' dylib library
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -c src/lib-pmpi/vt-hyb.c -o build/temp.linux-x86_64-cpython-312/src/lib-pmpi/vt-hyb.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -shared -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -Wl,--no-as-needed build/temp.linux-x86_64-cpython-312/src/lib-pmpi/vt-hyb.o -o build/lib.linux-x86_64-cpython-312/mpi4py/lib-pmpi/libvt-hyb.so
running build_ext
MPI configuration: [mpi] from 'mpi.cfg'
MPI C compiler:    /nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc
MPI C++ compiler:  /nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicxx
MPI F compiler:    /nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpifort
MPI F90 compiler:  /nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpif90
MPI F77 compiler:  /nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpif77
checking for dlopen() availability ...
checking for header 'dlfcn.h' ...
gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
success!
removing: _configtest.c _configtest.o
success!
checking for library 'dl' ...
gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
gcc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -ldl -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for function 'dlopen' ...
gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
gcc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -ldl -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
building 'mpi4py.dl' extension
gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -DHAVE_DLFCN_H=1 -DHAVE_DLOPEN=1 -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c src/dynload.c -o build/temp.linux-x86_64-cpython-312/src/dynload.o
gcc -shared -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-bzip2-1.0.8/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-expat-2.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-libffi-3.4.6/lib -L/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-mpdecimal-4.0.0/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-ncurses-6.4.20221231/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-openssl-3.0.14/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-sqlite-3.45.3/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-xz-5.6.2/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-zlib-1.3.1/lib -L/nix/store/k6vxnriwl3ywpmlmvif3zr418j7dwm1n-tzdata-2024a/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-gdbm-1.23/lib -L/nix/store/eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee-readline-8.2p10/lib build/temp.linux-x86_64-cpython-312/src/dynload.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -ldl -o build/lib.linux-x86_64-cpython-312/mpi4py/dl.cpython-312-x86_64-linux-gnu.so
checking for MPI compile and link ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
success!
removing: _configtest.c _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for missing MPI functions/symbols ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
success!
removing: _configtest.c _configtest.o
checking for function 'MPI_Type_create_f90_integer' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for function 'MPI_Type_create_f90_real' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for function 'MPI_Type_create_f90_complex' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for function 'MPI_Status_c2f' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for function 'MPI_Status_f2c' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc _configtest.o -L/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -Lbuild/temp.linux-x86_64-cpython-312 -Wl,--enable-new-dtags,-rpath,/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/lib -o _configtest
success!
removing: _configtest.c _configtest.o _configtest
checking for symbol 'MPI_LB' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
In file included from _configtest.c:2:
_configtest.c: In function ‘main’:
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/include/mpi.h:330:65: error: static assertion failed: "MPI_LB was removed in MPI-3.0.  Use MPI_Type_create_resized instead."
  330 | #define THIS_SYMBOL_WAS_REMOVED_IN_MPI30(symbol, new_symbol) 0; _Static_assert(0, #symbol " was removed in MPI-3.0.  Use " #new_symbol " instead.")
      |                                                                 ^~~~~~~~~~~~~~
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/include/mpi.h:1156:24: note: in expansion of macro ‘THIS_SYMBOL_WAS_REMOVED_IN_MPI30’
 1156 | #        define MPI_LB THIS_SYMBOL_WAS_REMOVED_IN_MPI30(MPI_LB, MPI_Type_create_resized);
      |                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
_configtest.c:5:23: note: in expansion of macro ‘MPI_LB’
    5 |   MPI_Datatype s; s = MPI_LB; (void)s;
      |                       ^~~~~~
failure.
removing: _configtest.c _configtest.o
checking for symbol 'MPI_UB' ...
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/bin/mpicc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -I/nix/store/533ikgdlff50xfypjnafb750kql0wsyn-libxcrypt-4.4.36/include -fPIC -I/nix/store/z7xxy35k7620hs6fn6la5fg2lgklv72l-python3-3.12.4/include/python3.12 -c _configtest.c -o _configtest.o
In file included from _configtest.c:2:
_configtest.c: In function ‘main’:
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/include/mpi.h:330:65: error: static assertion failed: "MPI_UB was removed in MPI-3.0.  Use MPI_Type_create_resized instead."
  330 | #define THIS_SYMBOL_WAS_REMOVED_IN_MPI30(symbol, new_symbol) 0; _Static_assert(0, #symbol " was removed in MPI-3.0.  Use " #new_symbol " instead.")
      |                                                                 ^~~~~~~~~~~~~~
/nix/store/4hw0zym4ly57jflgvhq4f5mzhj5kwkff-openmpi-4.1.6-dev/include/mpi.h:1155:24: note: in expansion of macro ‘THIS_SYMBOL_WAS_REMOVED_IN_MPI30’
 1155 | #        define MPI_UB THIS_SYMBOL_WAS_REMOVED_IN_MPI30(MPI_UB, MPI_Type_create_resized);
      |                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
_configtest.c:5:23: note: in expansion of macro ‘MPI_UB’
    5 |   MPI_Datatype s; s = MPI_UB; (void)s;
      |                       ^~~~~~
failure.

Description of changes

This PR packages mpi4py in 2024 standards, updates it so no errors appear in the build, and enables tests in h5py.

Things done

Add a 👍 reaction to pull requests you find important.

markuskowa · 2024-07-15T21:24:59Z

I am not sure this is really broken. There are a lot of packages that use mpi4py and still work (with passing tests).

Diff: precice/python-bindings@refs/tags/v3.1.0...v3.1.1

doronbehar · 2024-07-16T07:02:32Z

@markuskowa I iterated the direct reverse dependencies of mpi4py and here's what I learned:

Remove mpi4py as dependency precice/python-bindings#101 - upstream issue of pyprecice with mpi4py
https://hydra.nixos.org/build/265557130 and https://hydra.nixos.org/build/265551844 indicate that python31{1,2}Packages.hoomd-blue is broken regardless of the mpi4py dependency.

Besides the above, all packages that now don't depend on mpi4py build fine. Once ofborg finishes evaluation I will run nixpkgs-review and mark this PR as ready for review.

pkgs/development/python-modules/meep/default.nix

doronbehar · 2024-07-16T11:24:34Z

Result of nixpkgs-review pr 327444 run on x86_64-linux 1

18 packages marked as broken and skipped:

neuron-full
neuron-mpi
python311Packages.h5py-mpi
python311Packages.h5py-mpi.dist
python311Packages.hoomd-blue
python311Packages.mpi4py
python311Packages.mpi4py.dist
python311Packages.neuronpy
python311Packages.pyprecice
python311Packages.pyprecice.dist
python312Packages.h5py-mpi
python312Packages.h5py-mpi.dist
python312Packages.hoomd-blue
python312Packages.mpi4py
python312Packages.mpi4py.dist
python312Packages.neuronpy
python312Packages.pyprecice
python312Packages.pyprecice.dist

15 packages built:

paraview
python311Packages.baselines
python311Packages.baselines.dist
python311Packages.dask-mpi
python311Packages.dask-mpi.dist
python311Packages.fenics
python311Packages.fenics.dist
python311Packages.fipy
python311Packages.fipy.dist
python311Packages.meep
python312Packages.dask-mpi
python312Packages.dask-mpi.dist
python312Packages.fenics
python312Packages.fenics.dist
python312Packages.meep

pkgs/development/python-modules/h5py/default.nix

doronbehar · 2024-07-18T10:50:44Z

Marked many packages as broken to make nixpkgs-review easier and cleaner. All of these are already broken for a while according to hydra-check.

pkgs/development/python-modules/aplpy/default.nix

sheepforce · 2024-07-19T10:07:33Z

Here is finally my nixpkgs-review build:

Result of nixpkgs-review pr 327444 run on x86_64-linux 1

190 packages marked as broken and skipped:

khoj
khoj.dist
minari
minari.dist
python311Packages.atomman
python311Packages.atomman.dist
python311Packages.bambi
python311Packages.bambi.dist
python311Packages.caffeWithCuda
python311Packages.caffeWithCuda.bin
python311Packages.clifford
python311Packages.clifford.dist
python311Packages.dalle-mini
python311Packages.dalle-mini.dist
python311Packages.distrax
python311Packages.distrax.dist
python311Packages.dm-sonnet
python311Packages.dm-sonnet.dist
python311Packages.elegy
python311Packages.elegy.dist
python311Packages.fastai
python311Packages.fastai.dist
python311Packages.glueviz
python311Packages.glueviz.dist
python311Packages.haystack-ai
python311Packages.haystack-ai.dist
python311Packages.hoomd-blue
python311Packages.k-diffusion
python311Packages.k-diffusion.dist
python311Packages.llama-index
python311Packages.llama-index-agent-openai
python311Packages.llama-index-agent-openai.dist
python311Packages.llama-index-cli
python311Packages.llama-index-cli.dist
python311Packages.llama-index-core
python311Packages.llama-index-core.dist
python311Packages.llama-index-embeddings-gemini
python311Packages.llama-index-embeddings-gemini.dist
python311Packages.llama-index-embeddings-google
python311Packages.llama-index-embeddings-google.dist
python311Packages.llama-index-embeddings-huggingface
python311Packages.llama-index-embeddings-huggingface.dist
python311Packages.llama-index-embeddings-ollama
python311Packages.llama-index-embeddings-ollama.dist
python311Packages.llama-index-embeddings-openai
python311Packages.llama-index-embeddings-openai.dist
python311Packages.llama-index-graph-stores-nebula
python311Packages.llama-index-graph-stores-nebula.dist
python311Packages.llama-index-graph-stores-neo4j
python311Packages.llama-index-graph-stores-neo4j.dist
python311Packages.llama-index-graph-stores-neptune
python311Packages.llama-index-graph-stores-neptune.dist
python311Packages.llama-index-indices-managed-llama-cloud
python311Packages.llama-index-indices-managed-llama-cloud.dist
python311Packages.llama-index-legacy
python311Packages.llama-index-legacy.dist
python311Packages.llama-index-llms-ollama
python311Packages.llama-index-llms-ollama.dist
python311Packages.llama-index-llms-openai
python311Packages.llama-index-llms-openai-like
python311Packages.llama-index-llms-openai-like.dist
python311Packages.llama-index-llms-openai.dist
python311Packages.llama-index-multi-modal-llms-openai
python311Packages.llama-index-multi-modal-llms-openai.dist
python311Packages.llama-index-program-openai
python311Packages.llama-index-program-openai.dist
python311Packages.llama-index-question-gen-openai
python311Packages.llama-index-question-gen-openai.dist
python311Packages.llama-index-readers-database
python311Packages.llama-index-readers-database.dist
python311Packages.llama-index-readers-file
python311Packages.llama-index-readers-file.dist
python311Packages.llama-index-readers-json
python311Packages.llama-index-readers-json.dist
python311Packages.llama-index-readers-llama-parse
python311Packages.llama-index-readers-llama-parse.dist
python311Packages.llama-index-readers-s3
python311Packages.llama-index-readers-s3.dist
python311Packages.llama-index-readers-twitter
python311Packages.llama-index-readers-twitter.dist
python311Packages.llama-index-readers-txtai
python311Packages.llama-index-readers-txtai.dist
python311Packages.llama-index-readers-weather
python311Packages.llama-index-readers-weather.dist
python311Packages.llama-index-vector-stores-chroma
python311Packages.llama-index-vector-stores-chroma.dist
python311Packages.llama-index-vector-stores-google
python311Packages.llama-index-vector-stores-google.dist
python311Packages.llama-index-vector-stores-postgres
python311Packages.llama-index-vector-stores-postgres.dist
python311Packages.llama-index-vector-stores-qdrant
python311Packages.llama-index-vector-stores-qdrant.dist
python311Packages.llama-index.dist
python311Packages.llama-parse
python311Packages.llama-parse.dist
python311Packages.mhcflurry
python311Packages.mhcflurry.dist
python311Packages.minari
python311Packages.minari.dist
python311Packages.mne-python
python311Packages.mne-python.dist
python311Packages.n3fit
python311Packages.n3fit.dist
python311Packages.objax
python311Packages.objax.dist
python311Packages.openllm
python311Packages.openllm.dist
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python311Packages.outlines.dist
python311Packages.private-gpt
python311Packages.private-gpt.dist
python311Packages.pyscf
python311Packages.pyscf.dist
python311Packages.rlax
python311Packages.rlax.dist
python311Packages.shimmy
python311Packages.shimmy.dist
python311Packages.simple-dftd3
python311Packages.simple-dftd3.dist
python311Packages.skrl
python311Packages.skrl.dist
python311Packages.spacy
python311Packages.spacy-loggers
python311Packages.spacy-loggers.dist
python311Packages.spacy-lookups-data
python311Packages.spacy-lookups-data.dist
python311Packages.spacy-transformers
python311Packages.spacy-transformers.dist
python311Packages.spacy.dist
python311Packages.sumo
python311Packages.sumo.dist
python311Packages.sunpy
python311Packages.sunpy.dist
python311Packages.tensorflow-datasets
python311Packages.tensorflow-datasets.dist
python311Packages.textacy
python311Packages.textacy.dist
python311Packages.textnets
python311Packages.textnets.dist
python311Packages.tf2onnx
python311Packages.tf2onnx.dist
python311Packages.torchrl
python311Packages.torchrl.dist
python311Packages.treex
python311Packages.treex.dist
python311Packages.trfl
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python311Packages.vllm
python311Packages.vllm.dist
python311Packages.wandb
python311Packages.wandb.dist
python311Packages.worldengine
python311Packages.worldengine.dist
python312Packages.atomman
python312Packages.atomman.dist
python312Packages.clifford
python312Packages.clifford.dist
python312Packages.glueviz
python312Packages.glueviz.dist
python312Packages.haystack-ai
python312Packages.haystack-ai.dist
python312Packages.hoomd-blue
python312Packages.minari
python312Packages.minari.dist
python312Packages.mne-python
python312Packages.mne-python.dist
python312Packages.openllm
python312Packages.openllm.dist
python312Packages.outlines
python312Packages.outlines.dist
python312Packages.pyscf
python312Packages.pyscf.dist
python312Packages.simple-dftd3
python312Packages.simple-dftd3.dist
python312Packages.sumo
python312Packages.sumo.dist
python312Packages.tensordict
python312Packages.tensordict.dist
python312Packages.tensorflow-bin
python312Packages.tensorflow-bin.dist
python312Packages.torchrl
python312Packages.torchrl.dist
python312Packages.txtai
python312Packages.txtai.dist
python312Packages.vllm
python312Packages.vllm.dist
python312Packages.worldengine
python312Packages.worldengine.dist
worldengine-cli
worldengine-cli.dist

6 packages failed to build:

python311Packages.nitime
python311Packages.nitime.dist
python312Packages.nitime
python312Packages.nitime.dist
veusz
veusz.dist

362 packages built:

diffoscope
diffoscope.dist
diffoscope.man
diffoscopeMinimal
diffoscopeMinimal.dist
diffoscopeMinimal.man
frigate
libretranslate (python312Packages.libretranslate)
libretranslate.dist (python312Packages.libretranslate.dist)
libtensorflow (libtensorflow.python)
mokuro
mokuro.dist
neuron-full (python312Packages.neuronpy)
neuron-mpi
open-webui
open-webui.dist
openmolcas
paraview
python311Packages.accelerate
python311Packages.accelerate.dist
python311Packages.annoy
python311Packages.annoy.dist
python311Packages.argos-translate-files
python311Packages.argos-translate-files.dist
python311Packages.argostranslate
python311Packages.argostranslate.dist
python311Packages.arviz
python311Packages.arviz.dist
python311Packages.baselines
python311Packages.baselines.dist
python311Packages.bayespy
python311Packages.bayespy.dist
python311Packages.biom-format
python311Packages.biom-format.dist
python311Packages.caffe
python311Packages.caffe.bin
python311Packages.cleanlab
python311Packages.cleanlab.dist
python311Packages.corner
python311Packages.corner.dist
python311Packages.cppe
python311Packages.cppe.dist
python311Packages.ctranslate2
python311Packages.ctranslate2.dist
python311Packages.dask-mpi
python311Packages.dask-mpi.dist
python311Packages.dcmstack
python311Packages.dcmstack.dist
python311Packages.dicom2nifti
python311Packages.dicom2nifti.dist
python311Packages.diffusers
python311Packages.diffusers.dist
python311Packages.dipy
python311Packages.dipy.dist
python311Packages.dm-control
python311Packages.dm-control.dist
python311Packages.dm-haiku
python311Packages.dm-haiku.dist
python311Packages.edward
python311Packages.edward.dist
python311Packages.effdet
python311Packages.effdet.dist
python311Packages.energyflow
python311Packages.energyflow.dist
python311Packages.evosax
python311Packages.evosax.dist
python311Packages.faster-whisper
python311Packages.faster-whisper.dist
python311Packages.fenics
python311Packages.fenics.dist
python311Packages.fipy
python311Packages.fipy.dist
python311Packages.flax
python311Packages.flax.dist
python311Packages.flowmc
python311Packages.flowmc.dist
python311Packages.gpt-2-simple
python311Packages.gpt-2-simple.dist
python311Packages.gradio
python311Packages.gradio-client
python311Packages.gradio-client.dist
python311Packages.gradio-pdf
python311Packages.gradio-pdf.dist
python311Packages.gradio.dist
python311Packages.h5io
python311Packages.h5io.dist
python311Packages.h5netcdf
python311Packages.h5netcdf.dist
python311Packages.h5py
python311Packages.h5py-mpi
python311Packages.h5py-mpi.dist
python311Packages.h5py.dist
python311Packages.hdf5plugin
python311Packages.hdf5plugin.dist
python311Packages.hickle
python311Packages.hickle.dist
python311Packages.imgcat
python311Packages.imgcat.dist
python311Packages.intensity-normalization
python311Packages.intensity-normalization.dist
python311Packages.islpy
python311Packages.islpy.dist
python311Packages.keras
python311Packages.keras-applications
python311Packages.keras-applications.dist
python311Packages.keras.dist
python311Packages.libretranslate
python311Packages.libretranslate.dist
python311Packages.loopy
python311Packages.loopy.dist
python311Packages.manga-ocr
python311Packages.manga-ocr.dist
python311Packages.manifest-ml
python311Packages.manifest-ml.dist
python311Packages.meep
python311Packages.meshio
python311Packages.meshio.dist
python311Packages.mpi4py
python311Packages.mpi4py.dist
python311Packages.nanobind
python311Packages.nanobind.dist
python311Packages.neuronpy
python311Packages.nibabel
python311Packages.nibabel.dist
python311Packages.nilearn
python311Packages.nilearn.dist
python311Packages.nipy
python311Packages.nipy.dist
python311Packages.nipype
python311Packages.nipype.dist
python311Packages.nitransforms
python311Packages.nitransforms.dist
python311Packages.niworkflows
python311Packages.niworkflows.dist
python311Packages.omrdatasettools
python311Packages.omrdatasettools.dist
python311Packages.open-clip-torch
python311Packages.open-clip-torch.dist
python311Packages.optimum
python311Packages.optimum.dist
python311Packages.peft
python311Packages.peft.dist
python311Packages.phonopy
python311Packages.phonopy.dist
python311Packages.pvlib
python311Packages.pvlib.dist
python311Packages.pybids
python311Packages.pybids.dist
python311Packages.pylion
python311Packages.pylion.dist
python311Packages.pymatreader
python311Packages.pymatreader.dist
python311Packages.pymc
python311Packages.pymc.dist
python311Packages.pymedio
python311Packages.pymedio.dist
python311Packages.pyopencl
python311Packages.pyopencl.dist
python311Packages.pyprecice
python311Packages.pyprecice.dist
python311Packages.pytensor
python311Packages.pytensor.dist
python311Packages.pytest-mpi
python311Packages.pytest-mpi.dist
python311Packages.python-openems
python311Packages.python-openems.dist
python311Packages.qcodes
python311Packages.qcodes-contrib-drivers
python311Packages.qcodes-contrib-drivers.dist
python311Packages.qcodes.dist
python311Packages.reikna
python311Packages.reikna.dist
python311Packages.safetensors
python311Packages.safetensors.dist
python311Packages.sasmodels
python311Packages.sasmodels.dist
python311Packages.scikit-bio
python311Packages.scikit-bio.dist
python311Packages.sentence-transformers
python311Packages.sentence-transformers.dist
python311Packages.sfepy
python311Packages.sfepy.dist
python311Packages.skorch
python311Packages.skorch.dist
python311Packages.stanza
python311Packages.stanza.dist
python311Packages.templateflow
python311Packages.templateflow.dist
python311Packages.tensordict
python311Packages.tensordict.dist
python311Packages.tensorflow (python311Packages.tensorflow-build ,python311Packages.tensorflowWithoutCuda)
python311Packages.tensorflow-bin
python311Packages.tensorflow-bin.dist
python311Packages.tensorflow.dist (python311Packages.tensorflow-build.dist ,python311Packages.tensorflowWithoutCuda.dist)
python311Packages.tensorflow-probability
python311Packages.tensorflow-probability.dist
python311Packages.tensorflowWithCuda
python311Packages.tensorflowWithCuda.dist
python311Packages.tf-keras
python311Packages.tf-keras.dist
python311Packages.tflearn
python311Packages.tflearn.dist
python311Packages.timm
python311Packages.timm.dist
python311Packages.tinygrad
python311Packages.tinygrad.dist
python311Packages.torchinfo
python311Packages.torchinfo.dist
python311Packages.torchio
python311Packages.torchio.dist
python311Packages.transformers
python311Packages.transformers.dist
python311Packages.translatehtml
python311Packages.translatehtml.dist
python311Packages.txtai
python311Packages.txtai.dist
python311Packages.vqgan-jax
python311Packages.vqgan-jax.dist
python312Packages.accelerate
python312Packages.accelerate.dist
python312Packages.annoy
python312Packages.annoy.dist
python312Packages.argos-translate-files
python312Packages.argos-translate-files.dist
python312Packages.argostranslate
python312Packages.argostranslate.dist
python312Packages.arviz
python312Packages.arviz.dist
python312Packages.bayespy
python312Packages.bayespy.dist
python312Packages.biom-format
python312Packages.biom-format.dist
python312Packages.corner
python312Packages.corner.dist
python312Packages.cppe
python312Packages.cppe.dist
python312Packages.ctranslate2
python312Packages.ctranslate2.dist
python312Packages.dask-mpi
python312Packages.dask-mpi.dist
python312Packages.dcmstack
python312Packages.dcmstack.dist
python312Packages.dicom2nifti
python312Packages.dicom2nifti.dist
python312Packages.diffusers
python312Packages.diffusers.dist
python312Packages.dipy
python312Packages.dipy.dist
python312Packages.effdet
python312Packages.effdet.dist
python312Packages.energyflow
python312Packages.energyflow.dist
python312Packages.faster-whisper
python312Packages.faster-whisper.dist
python312Packages.fenics
python312Packages.fenics.dist
python312Packages.gradio
python312Packages.gradio-client
python312Packages.gradio-client.dist
python312Packages.gradio-pdf
python312Packages.gradio-pdf.dist
python312Packages.gradio.dist
python312Packages.h5io
python312Packages.h5io.dist
python312Packages.h5netcdf
python312Packages.h5netcdf.dist
python312Packages.h5py
python312Packages.h5py-mpi
python312Packages.h5py-mpi.dist
python312Packages.h5py.dist
python312Packages.hdf5plugin
python312Packages.hdf5plugin.dist
python312Packages.hickle
python312Packages.hickle.dist
python312Packages.keras-applications
python312Packages.keras-applications.dist
python312Packages.manga-ocr
python312Packages.manga-ocr.dist
python312Packages.manifest-ml
python312Packages.manifest-ml.dist
python312Packages.meep
python312Packages.meshio
python312Packages.meshio.dist
python312Packages.mpi4py
python312Packages.mpi4py.dist
python312Packages.nibabel
python312Packages.nibabel.dist
python312Packages.nilearn
python312Packages.nilearn.dist
python312Packages.nipy
python312Packages.nipy.dist
python312Packages.nipype
python312Packages.nipype.dist
python312Packages.nitransforms
python312Packages.nitransforms.dist
python312Packages.niworkflows
python312Packages.niworkflows.dist
python312Packages.omrdatasettools
python312Packages.omrdatasettools.dist
python312Packages.open-clip-torch
python312Packages.open-clip-torch.dist
python312Packages.optimum
python312Packages.optimum.dist
python312Packages.peft
python312Packages.peft.dist
python312Packages.phonopy
python312Packages.phonopy.dist
python312Packages.pvlib
python312Packages.pvlib.dist
python312Packages.pybids
python312Packages.pybids.dist
python312Packages.pylion
python312Packages.pylion.dist
python312Packages.pymatreader
python312Packages.pymatreader.dist
python312Packages.pymedio
python312Packages.pymedio.dist
python312Packages.pyprecice
python312Packages.pyprecice.dist
python312Packages.pytest-mpi
python312Packages.pytest-mpi.dist
python312Packages.python-openems
python312Packages.python-openems.dist
python312Packages.qcodes
python312Packages.qcodes-contrib-drivers
python312Packages.qcodes-contrib-drivers.dist
python312Packages.qcodes.dist
python312Packages.safetensors
python312Packages.safetensors.dist
python312Packages.scikit-bio
python312Packages.scikit-bio.dist
python312Packages.sentence-transformers
python312Packages.sentence-transformers.dist
python312Packages.sfepy
python312Packages.sfepy.dist
python312Packages.skorch
python312Packages.skorch.dist
python312Packages.stanza
python312Packages.stanza.dist
python312Packages.templateflow
python312Packages.templateflow.dist
python312Packages.timm
python312Packages.timm.dist
python312Packages.tinygrad
python312Packages.tinygrad.dist
python312Packages.torchinfo
python312Packages.torchinfo.dist
python312Packages.torchio
python312Packages.torchio.dist
python312Packages.transformers
python312Packages.transformers.dist
python312Packages.translatehtml
python312Packages.translatehtml.dist
rclip
rclip.dist
tests.pkg-config.defaultPkgConfigPackages.tensorflow
visidata
visidata.dist
whisper-ctranslate2
whisper-ctranslate2.dist
wyoming-faster-whisper
wyoming-faster-whisper.dist

pkgs/development/python-modules/pyscf/default.nix

doronbehar · 2024-07-19T16:08:16Z

Thanks @sheepforce for the Nixpkgs-review report :) I didn't manage to produce it myself..

I iterated once more the now broken packages and fixed some of them (including pyscf) by disabling failing tests that didn't seem critical to me. I also fixed the nitime build. Next nixpkgs-review report should be green, but I'm not sure I'll be able to run it myself.

sheepforce · 2024-07-22T08:41:41Z

I also fixed the nitime build. Next nixpkgs-review report should be green, but I'm not sure I'll be able to run it myself.

I've started another nixpkgs-review round, which is now running.

doronbehar · 2024-07-22T12:33:12Z

Result of nixpkgs-review pr 327444 run on x86_64-linux 1

178 packages marked as broken and skipped:

khoj
khoj.dist
minari
minari.dist
python311Packages.atomman
python311Packages.atomman.dist
python311Packages.bambi
python311Packages.bambi.dist
python311Packages.caffeWithCuda
python311Packages.caffeWithCuda.bin
python311Packages.clifford
python311Packages.clifford.dist
python311Packages.dalle-mini
python311Packages.dalle-mini.dist
python311Packages.distrax
python311Packages.distrax.dist
python311Packages.dm-sonnet
python311Packages.dm-sonnet.dist
python311Packages.elegy
python311Packages.elegy.dist
python311Packages.fastai
python311Packages.fastai.dist
python311Packages.glueviz
python311Packages.glueviz.dist
python311Packages.haystack-ai
python311Packages.haystack-ai.dist
python311Packages.hoomd-blue
python311Packages.k-diffusion
python311Packages.k-diffusion.dist
python311Packages.llama-index
python311Packages.llama-index-agent-openai
python311Packages.llama-index-agent-openai.dist
python311Packages.llama-index-cli
python311Packages.llama-index-cli.dist
python311Packages.llama-index-core
python311Packages.llama-index-core.dist
python311Packages.llama-index-embeddings-gemini
python311Packages.llama-index-embeddings-gemini.dist
python311Packages.llama-index-embeddings-google
python311Packages.llama-index-embeddings-google.dist
python311Packages.llama-index-embeddings-huggingface
python311Packages.llama-index-embeddings-huggingface.dist
python311Packages.llama-index-embeddings-ollama
python311Packages.llama-index-embeddings-ollama.dist
python311Packages.llama-index-embeddings-openai
python311Packages.llama-index-embeddings-openai.dist
python311Packages.llama-index-graph-stores-nebula
python311Packages.llama-index-graph-stores-nebula.dist
python311Packages.llama-index-graph-stores-neo4j
python311Packages.llama-index-graph-stores-neo4j.dist
python311Packages.llama-index-graph-stores-neptune
python311Packages.llama-index-graph-stores-neptune.dist
python311Packages.llama-index-indices-managed-llama-cloud
python311Packages.llama-index-indices-managed-llama-cloud.dist
python311Packages.llama-index-legacy
python311Packages.llama-index-legacy.dist
python311Packages.llama-index-llms-ollama
python311Packages.llama-index-llms-ollama.dist
python311Packages.llama-index-llms-openai
python311Packages.llama-index-llms-openai-like
python311Packages.llama-index-llms-openai-like.dist
python311Packages.llama-index-llms-openai.dist
python311Packages.llama-index-multi-modal-llms-openai
python311Packages.llama-index-multi-modal-llms-openai.dist
python311Packages.llama-index-program-openai
python311Packages.llama-index-program-openai.dist
python311Packages.llama-index-question-gen-openai
python311Packages.llama-index-question-gen-openai.dist
python311Packages.llama-index-readers-database
python311Packages.llama-index-readers-database.dist
python311Packages.llama-index-readers-file
python311Packages.llama-index-readers-file.dist
python311Packages.llama-index-readers-json
python311Packages.llama-index-readers-json.dist
python311Packages.llama-index-readers-llama-parse
python311Packages.llama-index-readers-llama-parse.dist
python311Packages.llama-index-readers-s3
python311Packages.llama-index-readers-s3.dist
python311Packages.llama-index-readers-twitter
python311Packages.llama-index-readers-twitter.dist
python311Packages.llama-index-readers-txtai
python311Packages.llama-index-readers-txtai.dist
python311Packages.llama-index-readers-weather
python311Packages.llama-index-readers-weather.dist
python311Packages.llama-index-vector-stores-chroma
python311Packages.llama-index-vector-stores-chroma.dist
python311Packages.llama-index-vector-stores-google
python311Packages.llama-index-vector-stores-google.dist
python311Packages.llama-index-vector-stores-postgres
python311Packages.llama-index-vector-stores-postgres.dist
python311Packages.llama-index-vector-stores-qdrant
python311Packages.llama-index-vector-stores-qdrant.dist
python311Packages.llama-index.dist
python311Packages.llama-parse
python311Packages.llama-parse.dist
python311Packages.mhcflurry
python311Packages.mhcflurry.dist
python311Packages.minari
python311Packages.minari.dist
python311Packages.n3fit
python311Packages.n3fit.dist
python311Packages.objax
python311Packages.objax.dist
python311Packages.openllm
python311Packages.openllm.dist
python311Packages.outlines
python311Packages.outlines.dist
python311Packages.private-gpt
python311Packages.private-gpt.dist
python311Packages.rlax
python311Packages.rlax.dist
python311Packages.shimmy
python311Packages.shimmy.dist
python311Packages.skrl
python311Packages.skrl.dist
python311Packages.spacy
python311Packages.spacy-loggers
python311Packages.spacy-loggers.dist
python311Packages.spacy-lookups-data
python311Packages.spacy-lookups-data.dist
python311Packages.spacy-transformers
python311Packages.spacy-transformers.dist
python311Packages.spacy.dist
python311Packages.sumo
python311Packages.sumo.dist
python311Packages.sunpy
python311Packages.sunpy.dist
python311Packages.tensorflow-datasets
python311Packages.tensorflow-datasets.dist
python311Packages.textacy
python311Packages.textacy.dist
python311Packages.textnets
python311Packages.textnets.dist
python311Packages.tf2onnx
python311Packages.tf2onnx.dist
python311Packages.torchrl
python311Packages.torchrl.dist
python311Packages.treex
python311Packages.treex.dist
python311Packages.trfl
python311Packages.trfl.dist
python311Packages.vllm
python311Packages.vllm.dist
python311Packages.wandb
python311Packages.wandb.dist
python311Packages.worldengine
python311Packages.worldengine.dist
python312Packages.atomman
python312Packages.atomman.dist
python312Packages.clifford
python312Packages.clifford.dist
python312Packages.glueviz
python312Packages.glueviz.dist
python312Packages.haystack-ai
python312Packages.haystack-ai.dist
python312Packages.hoomd-blue
python312Packages.minari
python312Packages.minari.dist
python312Packages.openllm
python312Packages.openllm.dist
python312Packages.outlines
python312Packages.outlines.dist
python312Packages.sumo
python312Packages.sumo.dist
python312Packages.tensordict
python312Packages.tensordict.dist
python312Packages.tensorflow-bin
python312Packages.tensorflow-bin.dist
python312Packages.torchrl
python312Packages.torchrl.dist
python312Packages.txtai
python312Packages.txtai.dist
python312Packages.vllm
python312Packages.vllm.dist
python312Packages.worldengine
python312Packages.worldengine.dist
worldengine-cli
worldengine-cli.dist

8 packages failed to build:

python311Packages.simple-dftd3
python311Packages.simple-dftd3.dist
python312Packages.simple-dftd3
python312Packages.simple-dftd3.dist
veusz
veusz.dist
whisper-ctranslate2
whisper-ctranslate2.dist

376 packages built:

diffoscope
diffoscope.dist
diffoscope.man
diffoscopeMinimal
diffoscopeMinimal.dist
diffoscopeMinimal.man
frigate
libretranslate (python312Packages.libretranslate)
libretranslate.dist (python312Packages.libretranslate.dist)
libtensorflow (libtensorflow.python)
mokuro
mokuro.dist
neuron-full (python312Packages.neuronpy)
neuron-mpi
open-webui
open-webui.dist
openmolcas
paraview
python311Packages.accelerate
python311Packages.accelerate.dist
python311Packages.annoy
python311Packages.annoy.dist
python311Packages.argos-translate-files
python311Packages.argos-translate-files.dist
python311Packages.argostranslate
python311Packages.argostranslate.dist
python311Packages.arviz
python311Packages.arviz.dist
python311Packages.baselines
python311Packages.baselines.dist
python311Packages.bayespy
python311Packages.bayespy.dist
python311Packages.biom-format
python311Packages.biom-format.dist
python311Packages.caffe
python311Packages.caffe.bin
python311Packages.cleanlab
python311Packages.cleanlab.dist
python311Packages.corner
python311Packages.corner.dist
python311Packages.cppe
python311Packages.cppe.dist
python311Packages.ctranslate2
python311Packages.ctranslate2.dist
python311Packages.dask-mpi
python311Packages.dask-mpi.dist
python311Packages.dcmstack
python311Packages.dcmstack.dist
python311Packages.dicom2nifti
python311Packages.dicom2nifti.dist
python311Packages.diffusers
python311Packages.diffusers.dist
python311Packages.dipy
python311Packages.dipy.dist
python311Packages.dm-control
python311Packages.dm-control.dist
python311Packages.dm-haiku
python311Packages.dm-haiku.dist
python311Packages.edward
python311Packages.edward.dist
python311Packages.effdet
python311Packages.effdet.dist
python311Packages.energyflow
python311Packages.energyflow.dist
python311Packages.evosax
python311Packages.evosax.dist
python311Packages.faster-whisper
python311Packages.faster-whisper.dist
python311Packages.fenics
python311Packages.fenics.dist
python311Packages.fipy
python311Packages.fipy.dist
python311Packages.flax
python311Packages.flax.dist
python311Packages.flowmc
python311Packages.flowmc.dist
python311Packages.gpt-2-simple
python311Packages.gpt-2-simple.dist
python311Packages.gradio
python311Packages.gradio-client
python311Packages.gradio-client.dist
python311Packages.gradio-pdf
python311Packages.gradio-pdf.dist
python311Packages.gradio.dist
python311Packages.h5io
python311Packages.h5io.dist
python311Packages.h5netcdf
python311Packages.h5netcdf.dist
python311Packages.h5py
python311Packages.h5py-mpi
python311Packages.h5py-mpi.dist
python311Packages.h5py.dist
python311Packages.hdf5plugin
python311Packages.hdf5plugin.dist
python311Packages.hickle
python311Packages.hickle.dist
python311Packages.imgcat
python311Packages.imgcat.dist
python311Packages.intensity-normalization
python311Packages.intensity-normalization.dist
python311Packages.islpy
python311Packages.islpy.dist
python311Packages.keras
python311Packages.keras-applications
python311Packages.keras-applications.dist
python311Packages.keras.dist
python311Packages.langchain-huggingface
python311Packages.langchain-huggingface.dist
python311Packages.libretranslate
python311Packages.libretranslate.dist
python311Packages.loopy
python311Packages.loopy.dist
python311Packages.manga-ocr
python311Packages.manga-ocr.dist
python311Packages.manifest-ml
python311Packages.manifest-ml.dist
python311Packages.meep
python311Packages.meshio
python311Packages.meshio.dist
python311Packages.mne-python
python311Packages.mne-python.dist
python311Packages.mpi4py
python311Packages.mpi4py.dist
python311Packages.nanobind
python311Packages.nanobind.dist
python311Packages.neuronpy
python311Packages.nibabel
python311Packages.nibabel.dist
python311Packages.nilearn
python311Packages.nilearn.dist
python311Packages.nipy
python311Packages.nipy.dist
python311Packages.nipype
python311Packages.nipype.dist
python311Packages.nitime
python311Packages.nitime.dist
python311Packages.nitransforms
python311Packages.nitransforms.dist
python311Packages.niworkflows
python311Packages.niworkflows.dist
python311Packages.omrdatasettools
python311Packages.omrdatasettools.dist
python311Packages.open-clip-torch
python311Packages.open-clip-torch.dist
python311Packages.optimum
python311Packages.optimum.dist
python311Packages.peft
python311Packages.peft.dist
python311Packages.phonopy
python311Packages.phonopy.dist
python311Packages.pvlib
python311Packages.pvlib.dist
python311Packages.pybids
python311Packages.pybids.dist
python311Packages.pylion
python311Packages.pylion.dist
python311Packages.pymatreader
python311Packages.pymatreader.dist
python311Packages.pymc
python311Packages.pymc.dist
python311Packages.pymedio
python311Packages.pymedio.dist
python311Packages.pyopencl
python311Packages.pyopencl.dist
python311Packages.pyprecice
python311Packages.pyprecice.dist
python311Packages.pyscf
python311Packages.pyscf.dist
python311Packages.pytensor
python311Packages.pytensor.dist
python311Packages.pytest-mpi
python311Packages.pytest-mpi.dist
python311Packages.python-openems
python311Packages.python-openems.dist
python311Packages.qcodes
python311Packages.qcodes-contrib-drivers
python311Packages.qcodes-contrib-drivers.dist
python311Packages.qcodes.dist
python311Packages.reikna
python311Packages.reikna.dist
python311Packages.safetensors
python311Packages.safetensors.dist
python311Packages.sasmodels
python311Packages.sasmodels.dist
python311Packages.scikit-bio
python311Packages.scikit-bio.dist
python311Packages.sentence-transformers
python311Packages.sentence-transformers.dist
python311Packages.sfepy
python311Packages.sfepy.dist
python311Packages.skorch
python311Packages.skorch.dist
python311Packages.stanza
python311Packages.stanza.dist
python311Packages.templateflow
python311Packages.templateflow.dist
python311Packages.tensordict
python311Packages.tensordict.dist
python311Packages.tensorflow (python311Packages.tensorflow-build ,python311Packages.tensorflowWithoutCuda)
python311Packages.tensorflow-bin
python311Packages.tensorflow-bin.dist
python311Packages.tensorflow.dist (python311Packages.tensorflow-build.dist ,python311Packages.tensorflowWithoutCuda.dist)
python311Packages.tensorflow-probability
python311Packages.tensorflow-probability.dist
python311Packages.tensorflowWithCuda
python311Packages.tensorflowWithCuda.dist
python311Packages.tf-keras
python311Packages.tf-keras.dist
python311Packages.tflearn
python311Packages.tflearn.dist
python311Packages.timm
python311Packages.timm.dist
python311Packages.tinygrad
python311Packages.tinygrad.dist
python311Packages.torchinfo
python311Packages.torchinfo.dist
python311Packages.torchio
python311Packages.torchio.dist
python311Packages.transformers
python311Packages.transformers.dist
python311Packages.translatehtml
python311Packages.translatehtml.dist
python311Packages.txtai
python311Packages.txtai.dist
python311Packages.vqgan-jax
python311Packages.vqgan-jax.dist
python312Packages.accelerate
python312Packages.accelerate.dist
python312Packages.annoy
python312Packages.annoy.dist
python312Packages.argos-translate-files
python312Packages.argos-translate-files.dist
python312Packages.argostranslate
python312Packages.argostranslate.dist
python312Packages.arviz
python312Packages.arviz.dist
python312Packages.bayespy
python312Packages.bayespy.dist
python312Packages.biom-format
python312Packages.biom-format.dist
python312Packages.corner
python312Packages.corner.dist
python312Packages.cppe
python312Packages.cppe.dist
python312Packages.ctranslate2
python312Packages.ctranslate2.dist
python312Packages.dask-mpi
python312Packages.dask-mpi.dist
python312Packages.dcmstack
python312Packages.dcmstack.dist
python312Packages.dicom2nifti
python312Packages.dicom2nifti.dist
python312Packages.diffusers
python312Packages.diffusers.dist
python312Packages.dipy
python312Packages.dipy.dist
python312Packages.effdet
python312Packages.effdet.dist
python312Packages.energyflow
python312Packages.energyflow.dist
python312Packages.faster-whisper
python312Packages.faster-whisper.dist
python312Packages.fenics
python312Packages.fenics.dist
python312Packages.gradio
python312Packages.gradio-client
python312Packages.gradio-client.dist
python312Packages.gradio-pdf
python312Packages.gradio-pdf.dist
python312Packages.gradio.dist
python312Packages.h5io
python312Packages.h5io.dist
python312Packages.h5netcdf
python312Packages.h5netcdf.dist
python312Packages.h5py
python312Packages.h5py-mpi
python312Packages.h5py-mpi.dist
python312Packages.h5py.dist
python312Packages.hdf5plugin
python312Packages.hdf5plugin.dist
python312Packages.hickle
python312Packages.hickle.dist
python312Packages.keras-applications
python312Packages.keras-applications.dist
python312Packages.langchain-huggingface
python312Packages.langchain-huggingface.dist
python312Packages.manga-ocr
python312Packages.manga-ocr.dist
python312Packages.manifest-ml
python312Packages.manifest-ml.dist
python312Packages.meep
python312Packages.meshio
python312Packages.meshio.dist
python312Packages.mne-python
python312Packages.mne-python.dist
python312Packages.mpi4py
python312Packages.mpi4py.dist
python312Packages.nibabel
python312Packages.nibabel.dist
python312Packages.nilearn
python312Packages.nilearn.dist
python312Packages.nipy
python312Packages.nipy.dist
python312Packages.nipype
python312Packages.nipype.dist
python312Packages.nitime
python312Packages.nitime.dist
python312Packages.nitransforms
python312Packages.nitransforms.dist
python312Packages.niworkflows
python312Packages.niworkflows.dist
python312Packages.omrdatasettools
python312Packages.omrdatasettools.dist
python312Packages.open-clip-torch
python312Packages.open-clip-torch.dist
python312Packages.optimum
python312Packages.optimum.dist
python312Packages.peft
python312Packages.peft.dist
python312Packages.phonopy
python312Packages.phonopy.dist
python312Packages.pvlib
python312Packages.pvlib.dist
python312Packages.pybids
python312Packages.pybids.dist
python312Packages.pylion
python312Packages.pylion.dist
python312Packages.pymatreader
python312Packages.pymatreader.dist
python312Packages.pymedio
python312Packages.pymedio.dist
python312Packages.pyprecice
python312Packages.pyprecice.dist
python312Packages.pyscf
python312Packages.pyscf.dist
python312Packages.pytest-mpi
python312Packages.pytest-mpi.dist
python312Packages.python-openems
python312Packages.python-openems.dist
python312Packages.qcodes
python312Packages.qcodes-contrib-drivers
python312Packages.qcodes-contrib-drivers.dist
python312Packages.qcodes.dist
python312Packages.safetensors
python312Packages.safetensors.dist
python312Packages.scikit-bio
python312Packages.scikit-bio.dist
python312Packages.sentence-transformers
python312Packages.sentence-transformers.dist
python312Packages.sfepy
python312Packages.sfepy.dist
python312Packages.skorch
python312Packages.skorch.dist
python312Packages.stanza
python312Packages.stanza.dist
python312Packages.templateflow
python312Packages.templateflow.dist
python312Packages.timm
python312Packages.timm.dist
python312Packages.tinygrad
python312Packages.tinygrad.dist
python312Packages.torchinfo
python312Packages.torchinfo.dist
python312Packages.torchio
python312Packages.torchio.dist
python312Packages.transformers
python312Packages.transformers.dist
python312Packages.translatehtml
python312Packages.translatehtml.dist
rclip
rclip.dist
tests.pkg-config.defaultPkgConfigPackages.tensorflow
visidata
visidata.dist
wyoming-faster-whisper
wyoming-faster-whisper.dist

sheepforce

Got the same results as in your nixpkgs-review. simple-dftd3 is broken due to an ASE update, not because of the changes in this PR.

pkgs/development/python-modules/h5py/default.nix

pkgs/development/python-modules/nitime/default.nix

These fail due to deprecated API calls Co-authored-by: Phillip <[email protected]>

doronbehar · 2024-07-22T12:48:23Z

Thanks for the thorough review @sheepforce . I fixed the comments as you suggested. Will merge when CI is green.

github-actions bot added the 6.topic: python label Jul 15, 2024

doronbehar marked this pull request as draft July 15, 2024 18:10

doronbehar force-pushed the pkg/mpi4py branch from c1eaa13 to dbd4b79 Compare July 15, 2024 18:11

doronbehar requested review from markuskowa and SuperSandro2000 July 15, 2024 18:12

ofborg bot added 11.by: package-maintainer This PR was created by the maintainer of the package it changes 10.rebuild-darwin: 11-100 10.rebuild-linux: 11-100 labels Jul 15, 2024

python311Packages.pyprecice: 3.1.0 -> 3.1.1

32bd063

Diff: precice/python-bindings@refs/tags/v3.1.0...v3.1.1

doronbehar force-pushed the pkg/mpi4py branch from dbd4b79 to 909b4cb Compare July 16, 2024 06:57

ofborg bot requested review from Scriptkiddi, timokau, sheepforce, wd15 and dguibert July 16, 2024 07:28

sheepforce suggested changes Jul 16, 2024

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doronbehar force-pushed the pkg/mpi4py branch from 909b4cb to 5d9f332 Compare July 16, 2024 15:05

doronbehar changed the title ~~python312Packages.mpi4py: rewrite; mark as broken~~ python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite Jul 16, 2024

python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite

b306e0e

doronbehar force-pushed the pkg/mpi4py branch from 5d9f332 to 75511d3 Compare July 16, 2024 15:16

doronbehar marked this pull request as ready for review July 16, 2024 15:19

doronbehar requested a review from natsukium as a code owner July 16, 2024 15:19

doronbehar mentioned this pull request Jul 16, 2024

openmpi: 4.1.6 -> 5.0.3 #327438

Merged

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ofborg bot added 8.has: package (new) This PR adds a new package 10.rebuild-darwin: 101-500 10.rebuild-linux: 101-500 and removed 10.rebuild-darwin: 11-100 labels Jul 16, 2024

sheepforce reviewed Jul 17, 2024

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python312Packages.h5py: small cleanup

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doronbehar force-pushed the pkg/mpi4py branch from 2ae7da9 to 7a7356c Compare July 17, 2024 15:00

SuperSandro2000 reviewed Jul 18, 2024

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doronbehar force-pushed the pkg/mpi4py branch from cfec9b8 to 9ee14ae Compare July 19, 2024 16:06

doronbehar requested a review from sheepforce July 19, 2024 16:08

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doronbehar and others added 10 commits July 22, 2024 15:44

python312Packages.h5py-mpi: fix build

4f6b37d

python311Packages.hoomd-blue: mark as broken

6828970

python311Packages.mne-python: disable failing test

be4a8aa

python311Packages.objax: mark as broken

2798c7a

python311Packages.outlines: mark as broken

37217cb

python311Packages.aplpy: mark as broken

a75a635

python311Packages.pymatgen: mark as broken

57b0c6d

diffoscope: disable another broken test

9eae9c2

python311Packages.nitime: fix pyproject.toml substitution

4f37fc7

python312Packages.pyscf: disable more failing tests

a52c6d9

These fail due to deprecated API calls Co-authored-by: Phillip <[email protected]>

doronbehar force-pushed the pkg/mpi4py branch from 9ee14ae to a52c6d9 Compare July 22, 2024 12:46

doronbehar merged commit 90ad173 into NixOS:master Jul 22, 2024
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doronbehar deleted the pkg/mpi4py branch July 22, 2024 13:55

ghpzin mentioned this pull request Jul 23, 2024

Build failure: python311Packages.aplpy #328622

Closed

aij mentioned this pull request Jul 30, 2024

[24.05] diffoscope: disable another broken test #330982

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python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite #327444

python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite #327444

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python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite #327444

python312Packages.mpi4py: 3.1.6 -> 3.1.6-unstable-2024-07-08; rewrite #327444

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