Installation issue: py-snudda
Summary
| Summary | Spack package build failure |
| Package info | py-snudda-2.0.1 |
| System | JUSUF |
| Related | !510 (comment 22372) |
Steps to reproduce the issue
$ spack spec -I <spec>
Input spec
--------------------------------
- py-snudda
Concretized
--------------------------------
- py-snudda@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^neuron@8.2.3%gcc@12.3.0~caliper+coreneuron~cross-compile~interviews~ipo~legacy-unit+mpi+python+rx3d~tests build_system=cmake build_type=Release generator=make patches=652488c arch=linux-rocky8-zen2
[+] ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^m4@1.4.19%gcc@12.3.0+sigsegv build_system=autotools patches=9dc5fbd,bfdffa7 arch=linux-rocky8-zen2
[+] ^libsigsegv@2.14%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^perl@5.38.0%gcc@12.3.0+cpanm+opcode+open+shared+threads build_system=generic patches=714e4d1 arch=linux-rocky8-zen2
[+] ^berkeley-db@18.1.40%gcc@12.3.0+cxx~docs+stl build_system=autotools patches=26090f4,b231fcc arch=linux-rocky8-zen2
[+] ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rocky8-zen2
[+] ^flex@2.6.4%gcc@12.3.0+lex~nls build_system=autotools patches=f8b85a0 arch=linux-rocky8-zen2
[+] ^autoconf@2.69%gcc@12.3.0 build_system=autotools patches=35c4492,7793209,a49dd5b arch=linux-rocky8-zen2
[+] ^automake@1.16.5%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^findutils@4.9.0%gcc@12.3.0 build_system=autotools patches=440b954 arch=linux-rocky8-zen2
[+] ^help2man@1.49.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libtool@2.4.7%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rocky8-zen2
[+] ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rocky8-zen2
[e] ^libxml2@2.11.4%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rocky8-zen2
[+] ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rocky8-zen2
[+] ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rocky8-zen2
[+] ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rocky8-zen2
[+] ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rocky8-zen2
[e] ^mpich@4.1.5%gcc@12.3.0~argobots+cuda+fortran+hwloc+hydra+libxml2+pci~rocm+romio~slurm~vci~verbs+wrapperrpath build_system=autotools cuda_arch=75 datatype-engine=auto device=ch4 netmod=ofi pmi=pmi arch=linux-rocky8-zen2
[+] ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rocky8-zen2
[+] ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rocky8-zen2
[+] ^open3d@0.18.0%gcc@12.3.0+cuda~ipo+python build_system=cmake build_type=Release cuda_arch=75 generator=make patches=8db6a09 arch=linux-rocky8-zen2
[+] ^assimp@5.3.1%gcc@12.3.0~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^cppzmq@4.9.0%gcc@12.3.0~drafts~ipo build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[e] ^cuda@12.2.91%gcc@12.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-rocky8-zen2
[+] ^curl@8.4.0%gcc@12.3.0~gssapi~ldap+libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-rocky8-zen2
[+] ^libidn2@2.3.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libunistring@1.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^nghttp2@1.57.0%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^eigen@3.4.0%gcc@12.3.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-rocky8-zen2
[+] ^embree@3.13.5%gcc@12.3.0~ipo+ispc build_system=cmake build_type=Release generator=make patches=3af5a65 arch=linux-rocky8-zen2
[+] ^intel-tbb@2020.3%gcc@12.3.0+shared+tm build_system=makefile cxxstd=default patches=62ba015,ce1fb16,d62cb66 arch=linux-rocky8-zen2
[+] ^ispc@1.18.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make patches=3f7dae8 arch=linux-rocky8-zen2
[+] ^fmt@9.1.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make patches=08fb707 arch=linux-rocky8-zen2
[+] ^glew@2.2.0%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make gl=glx patches=7992e52 arch=linux-rocky8-zen2
[+] ^glx@1.4%gcc@12.3.0 build_system=bundle arch=linux-rocky8-zen2
[+] ^mesa@23.0.3%gcc@12.3.0+glx+llvm+opengl~opengles+osmesa~strip build_system=meson buildtype=release default_library=shared arch=linux-rocky8-zen2
[+] ^glproto@1.4.17%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libunwind@1.6.2%gcc@12.3.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib build_system=autotools components=none libs=shared,static arch=linux-rocky8-zen2
[+] ^py-mako@1.2.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^xrandr@1.5.0%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libx11@1.8.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^inputproto@2.3.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^kbproto@1.0.7%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxcb@1.14%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libpthread-stubs@0.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxau@1.0.8%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxdmcp@1.1.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^xcb-proto@1.15.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^util-macros@1.19.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^xextproto@7.3.0%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^xtrans@1.4.0%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^xproto@7.0.31%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^glfw@3.3.8%gcc@12.3.0~doc~ipo~shared build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^fontconfig@2.13.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^font-util@1.4.0%gcc@12.3.0 build_system=autotools fonts=encodings,font-adobe-100dpi,font-adobe-75dpi,font-adobe-utopia-100dpi,font-adobe-utopia-75dpi,font-adobe-utopia-type1,font-alias,font-arabic-misc,font-bh-100dpi,font-bh-75dpi,font-bh-lucidatypewriter-100dpi,font-bh-lucidatypewriter-75dpi,font-bh-type1,font-bitstream-100dpi,font-bitstream-75dpi,font-bitstream-speedo,font-bitstream-type1,font-cronyx-cyrillic,font-cursor-misc,font-daewoo-misc,font-dec-misc,font-ibm-type1,font-isas-misc,font-jis-misc,font-micro-misc,font-misc-cyrillic,font-misc-ethiopic,font-misc-meltho,font-misc-misc,font-mutt-misc,font-schumacher-misc,font-screen-cyrillic,font-sun-misc,font-winitzki-cyrillic,font-xfree86-type1 arch=linux-rocky8-zen2
[+] ^bdftopcf@1.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^fontsproto@2.1.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxfont@1.5.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^mkfontdir@1.0.7%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^mkfontscale@1.2.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libfontenc@1.1.7%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^gperf@3.1%gcc@12.3.0 build_system=autotools patches=3dd36db arch=linux-rocky8-zen2
[+] ^libxcursor@1.2.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^fixesproto@5.0%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxfixes@5.0.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxrender@0.9.10%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxdamage@1.1.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^damageproto@1.2.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxft@2.3.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxi@1.7.6%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxext@1.3.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxinerama@1.1.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^xineramaproto@1.2.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxmu@1.1.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxt@1.1.5%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libice@1.0.9%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libsm@1.2.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxrandr@1.5.3%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^randrproto@1.5.0%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^renderproto@0.11.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^googletest@1.12.1%gcc@12.3.0+gmock~ipo+pthreads+shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rocky8-zen2
[+] ^jsoncpp@1.9.5%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^libjpeg-turbo@3.0.0%gcc@12.3.0~ipo~jpeg8+shared+static build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^nasm@2.15.05%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^llvm@11.1.0%gcc@12.3.0+clang~cuda~flang+gold~ipo~libomp_tsan+libomptarget~libomptarget_debug~link_llvm_dylib+lld+lldb+llvm_dylib+lua~mlir+polly+python~split_dwarf+visionary~z3 build_system=cmake build_type=Release compiler-rt=runtime generator=ninja libcxx=runtime libunwind=runtime openmp=project patches=0e121ed,1ff80b8,514926d,66932ba,6f0cfa5,7425017,76c2bb8,82890e3,8e61af6,bf6dcb3 targets=all version_suffix=none arch=linux-rocky8-zen2
[e] ^binutils@2.40%gcc@12.3.0~gas+gold~gprofng+headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rocky8-zen2
[+] ^elfutils@0.189%gcc@12.3.0~debuginfod+exeprefix+nls build_system=autotools arch=linux-rocky8-zen2
[e] ^hwloc@2.9.1%gcc@12.3.0~cairo+cuda~gl~libudev+libxml2~netloc~nvml~oneapi-level-zero~opencl+pci~rocm build_system=autotools cuda_arch=75 libs=shared,static arch=linux-rocky8-zen2
[+] ^libedit@3.1-20210216%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^lua@5.3.6%gcc@12.3.0~pcfile+shared build_system=makefile fetcher=curl arch=linux-rocky8-zen2
[+] ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rocky8-zen2
[+] ^re2c@2.2%gcc@12.3.0 build_system=generic arch=linux-rocky8-zen2
[+] ^perl-data-dumper@2.173%gcc@12.3.0 build_system=perl arch=linux-rocky8-zen2
[+] ^py-six@1.16.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^swig@4.0.2-fortran%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^pcre@8.45%gcc@12.3.0~jit+multibyte+utf build_system=autotools arch=linux-rocky8-zen2
[+] ^msgpack-c@3.1.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^nanoflann@1.5.4%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^openssl@3.1.3%gcc@12.3.0~docs+shared build_system=generic certs=mozilla arch=linux-rocky8-zen2
[+] ^ca-certificates-mozilla@2023-05-30%gcc@12.3.0 build_system=generic arch=linux-rocky8-zen2
[+] ^py-configargparse@1.2.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-dash@2.16.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-flask@2.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-blinker@1.6.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-click@8.1.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-itsdangerous@2.1.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-nest-asyncio@1.5.6%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-plotly@5.14.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-tenacity@8.2.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-requests@2.31.0%gcc@12.3.0~socks build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-charset-normalizer@3.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-idna@3.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-urllib3@2.0.6%gcc@12.3.0~brotli~secure~socks build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-retrying@1.3.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-nbformat@5.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-fastjsonschema@2.16.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-hatch-nodejs-version@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jsonschema@4.17.3%gcc@12.3.0~format-nongpl build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pyrsistent@0.19.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyter-core@5.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-platformdirs@3.10.0%gcc@12.3.0~wheel build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pybind11@2.11.0%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rocky8-zen2
[+] ^py-werkzeug@3.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^qhull@2020.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^py-bluepyopt@1.13.86%gcc@12.3.0+neuron build_system=python_pip patches=dc37639 arch=linux-rocky8-zen2
[+] ^py-deap@1.3.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-efel@4.0.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-future@0.18.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pandas@2.1.2%gcc@12.3.0~excel build_system=python_pip arch=linux-rocky8-zen2
[+] ^meson@1.2.1%gcc@12.3.0 build_system=python_pip patches=0f0b1bd,ae59765 arch=linux-rocky8-zen2
[+] ^py-bottleneck@1.3.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pytz@2023.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-tzdata@2023.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-versioneer@0.29%gcc@12.3.0+toml build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pebble@5.0.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pickleshare@0.7.5%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-cython@3.0.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-h5py@3.8.0%gcc@12.3.0+mpi build_system=python_pip arch=linux-rocky8-zen2
[+] ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rocky8-zen2
[+] ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rocky8-zen2
[+] ^py-pkgconfig@1.5.5%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-poetry-core@1.6.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-importlib-metadata@6.6.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-setuptools-scm@7.0.5%gcc@12.3.0+toml build_system=python_pip arch=linux-rocky8-zen2
[+] ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rocky8-zen2
[+] ^openssh@9.5p1%gcc@12.3.0+gssapi build_system=autotools arch=linux-rocky8-zen2
[+] ^krb5@1.20.1%gcc@12.3.0+shared build_system=autotools arch=linux-rocky8-zen2
[+] ^pcre2@10.42%gcc@12.3.0~jit+multibyte build_system=autotools arch=linux-rocky8-zen2
[+] ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-zipp@3.17.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-ipyparallel@8.4.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-decorator@5.1.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-entrypoints@0.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-hatchling@1.18.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-ipykernel@6.23.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-comm@0.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-debugpy@1.6.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-matplotlib-inline@0.1.6%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-ipython@8.14.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-backcall@0.2.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jedi@0.18.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-parso@0.8.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pexpect@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-ptyprocess@0.7.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-prompt-toolkit@3.0.38%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-wcwidth@0.2.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pygments@2.16.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-stack-data@0.6.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-asttokens@2.4.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-executing@1.2.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pure-eval@0.2.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyter-client@8.2.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyterlab@3.4.8%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyter-packaging@0.12.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-deprecation@2.1.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-tomlkit@0.12.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyter-server@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-anyio@3.6.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-sniffio@1.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-argon2-cffi@21.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-argon2-cffi-bindings@21.2.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-nbconvert@7.4.0%gcc@12.3.0+serve build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-beautifulsoup4@4.12.2%gcc@12.3.0~html5lib~lxml build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-soupsieve@2.4.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-bleach@6.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-webencodings@0.5.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-defusedxml@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyterlab-pygments@0.2.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-mistune@2.0.5%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-nbclient@0.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pandocfilters@1.5.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-tinycss2@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pre-commit@3.3.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-cfgv@3.4.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-identify@2.5.24%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-nodeenv@1.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-virtualenv@20.24.5%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-distlib@0.3.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-filelock@3.12.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-prometheus-client@0.17.0%gcc@12.3.0~twisted build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-send2trash@1.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-terminado@0.17.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-websocket-client@1.6.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-jupyterlab-server@2.22.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-babel@2.12.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-json5@0.9.14%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-nbclassic@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-ipython-genutils@0.2.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-notebook-shim@0.2.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-notebook@6.5.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-python-dateutil@2.8.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-tornado@6.3.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-tqdm@4.66.1%gcc@12.3.0~notebook~telegram build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-traitlets@5.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-libsonata@0.1.23%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-matplotlib@3.7.3%gcc@12.3.0~animation~fonts~latex~movies backend=agg build_system=python_pip arch=linux-rocky8-zen2
[+] ^freetype@2.11.1%gcc@12.3.0+pic+shared build_system=autotools arch=linux-rocky8-zen2
[+] ^libpng@1.6.39%gcc@12.3.0~ipo~pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-rocky8-zen2
[+] ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^py-certifi@2023.7.22%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-contourpy@1.0.7%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-cycler@0.11.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-fonttools@4.39.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-kiwisolver@1.4.5%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-cppy@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pillow@10.0.0%gcc@12.3.0~freetype~imagequant+jpeg~jpeg2000~lcms~raqm~tiff~webp~xcb+zlib build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pyparsing@3.0.9%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-numba@0.56.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-llvmlite@0.39.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-numexpr@2.8.4%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-numpy@1.23.5%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rocky8-zen2
[+] ^openblas@0.3.24%gcc@12.3.0~bignuma~consistent_fpcsr+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-rocky8-zen2
[+] ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rocky8-zen2
[+] ^py-psutil@5.9.5%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pyswarms@1.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-attrs@23.1.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-hatch-fancy-pypi-readme@23.1.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pyyaml@6.0%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rocky8-zen2
[+] ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^py-pyzmq@25.0.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^libzmq@4.3.5%gcc@12.3.0~docs~drafts+libbsd+libsodium~libunwind build_system=autotools arch=linux-rocky8-zen2
[+] ^libbsd@0.11.7%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libmd@1.0.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libsodium@1.0.18%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^py-gevent@23.7.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-cffi@1.15.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pycparser@2.21%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-greenlet@2.0.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-zope-event@4.6%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-zope-interface@5.4.0%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-scipy@1.11.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-meson-python@0.13.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-pythran@0.12.2%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-beniget@0.4.1%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-gast@0.5.3%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-ply@3.11%gcc@12.3.0 build_system=python_pip arch=linux-rocky8-zen2
[+] ^py-setuptools@62.6.0%gcc@12.3.0 build_system=generic arch=linux-rocky8-zen2
[+] ^py-wheel@0.37.1%gcc@12.3.0 build_system=generic arch=linux-rocky8-zen2
[+] ^python@3.10.13%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix+tkinter+uuid+zlib build_system=generic patches=0d98e93,ebdca64,f2fd060 arch=linux-rocky8-zen2
[+] ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rocky8-zen2
[+] ^expat@2.5.0%gcc@12.3.0+libbsd build_system=autotools arch=linux-rocky8-zen2
[+] ^gdbm@1.23%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libffi@3.4.4%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^libxcrypt@4.4.35%gcc@12.3.0~obsolete_api build_system=autotools patches=4885da3 arch=linux-rocky8-zen2
[+] ^sqlite@3.43.2%gcc@12.3.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-rocky8-zen2
[+] ^tcl@8.6.12%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^tk@8.6.11%gcc@12.3.0+xft+xss build_system=autotools arch=linux-rocky8-zen2
[+] ^libxscrnsaver@1.2.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^scrnsaverproto@1.2.2%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[+] ^util-linux-uuid@2.38.1%gcc@12.3.0 build_system=autotools arch=linux-rocky8-zen2
[e] ^xz@5.4.2%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rocky8-zen2
[+] ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rocky8-zen2
[+] ^unzip@6.0%gcc@12.3.0 build_system=makefile arch=linux-rocky8-zen2
$ spack install <spec>
==> Installing py-snudda-2.0.1-ygryhlzzkwzua26f7cm322yrwoup6d5a [321/326]
==> No binary for py-snudda-2.0.1-ygryhlzzkwzua26f7cm322yrwoup6d5a found: installing from source
==> Using cached archive: /p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/spack-source-cache/_source-cache/archive/0d/0d78f5ca2cfe728b216f980078d8558a.tar.gz
==> No patches needed for py-snudda
==> py-snudda: Executing phase: 'install'
==> Error: ProcessError: Command exited with status 1:
'/p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/install/linux-rocky8-zen2/gcc-12.3.0/python-3.10.13-ekqn66723nihkfnxfejdjphgi7kpkmn2/bin/python3.10' '-m' 'pip' '-vvv' '--no-input' '--no-cache-dir' '--disable-pip-version-check' 'install' '--no-deps' '--ignore-installed' '--no-build-isolation' '--no-warn-script-location' '--no-index' '--prefix=/p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/install/linux-rocky8-zen2/gcc-12.3.0/py-snudda-2.0.1-ygryhlzzkwzua26f7cm322yrwoup6d5a' '.'
1 error found in build log:
77 setup_py_code = "from setuptools import setup; setup()"
78
79 exec(compile(setup_py_code, filename, "exec"))
80 '"'"''"'"''"'"' % ('"'"'/p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/spack-user-cache/mueller2/build-stage/spack-stage-py-snudda-2.0.1-ygryhlzzkwzua26f7cm322yrwoup6d5a/spack-src/setu
p.py'"'"',), "<pip-setuptools-caller>", "exec"))' egg_info --egg-base /tmp/pip-pip-egg-info-tbqkvgsq
81 cwd: /p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/spack-user-cache/mueller2/build-stage/spack-stage-py-snudda-2.0.1-ygryhlzzkwzua26f7cm322yrwoup6d5a/spack-src/
82 Preparing metadata (setup.py): finished with status 'error'
>> 83 error: metadata-generation-failed
84
85 × Encountered error while generating package metadata.
86 ╰─> See above for output.
87
88 note: This is an issue with the package mentioned above, not pip.
89 hint: See above for details.
See build log for details:
/p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/spack-user-cache/mueller2/build-stage/spack-stage-py-snudda-2.0.1-ygryhlzzkwzua26f7cm322yrwoup6d5a/spack-build-out.txtError message
see aboveInformation on your system
09:52:49 with mueller2 in /p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf at jsfl02 took 38s
➜ spack debug report
* **Spack:** 0.21.1 (6b3ed3d9a53ecffbb22f1a2c9ac4979089e39717)
* **Python:** 3.6.8
* **Platform:** linux-rocky8-zen2
* **Concretizer:** clingoAdditional information
What I suspect to happen:
35 File "/p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/install/linux-rocky8-zen2/gcc-12.3.0/open3d-0.18.0-wtmx56ysgzwuqctvyxnysprvlxzewbgq/lib/python3.10/site-packages/open3d/__init__.py", lin e 93, in <module>
36 from open3d.cpu.pybind import (core, camera, data, geometry, io, pipelines,
37 ModuleNotFoundError: No module named 'open3d.cpu'
38 error: subprocess-exited-with-errorThe reason is inside /p/usersoftware/ebrains-sw-stack/ebrains-24.04/jusuf/ebrains-spack-builds/.spack-env/view/lib/python3.10/site-packages/open3d/__init__.py, where __DEVICE_API__ is only set to cuda, if _pybind_cuda.open3d_core_cuda_device_count() > 0 evaluates to true.
Unfortunately, JUSUF-Login-Nodes do not have GPUs, so this will never happen (in contrast to JURECA).
To be honest, open3d should not do a GPU-only installation (skip the cpu-module) in the first place...
Edited by Andreas Müller