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| Building wheels for collected packages: 21cmfast, cosmotile
Building wheel for 21cmfast (pyproject.toml) ... error
error: subprocess-exited-with-error
× Building wheel for 21cmfast (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [213 lines of output]
/tmp/pip-build-env-t5twjizk/overlay/lib/python3.12/site-packages/setuptools_scm/_integration/setuptools.py:92: UserWarning: version of 21cmFAST already set
warnings.warn(f"version of {dist_name} already set")
/tmp/pip-build-env-t5twjizk/normal/lib/python3.12/site-packages/cffi/cparser.py:163: UserWarning: Global variable 'photon_cons_allocated' in cdef(): for consistency with C it should have a storage class specifier (usually 'extern')
warnings.warn("Global variable '%s' in cdef(): for consistency "
/tmp/pip-build-env-t5twjizk/normal/lib/python3.12/site-packages/cffi/cparser.py:163: UserWarning: Global variable 'interpolation_tables_allocated' in cdef(): for consistency with C it should have a storage class specifier (usually 'extern')
warnings.warn("Global variable '%s' in cdef(): for consistency "
/tmp/pip-build-env-t5twjizk/overlay/lib/python3.12/site-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
!!
********************************************************************************
Please consider removing the following classifiers in favor of a SPDX license expression:
License :: OSI Approved :: MIT License
See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
********************************************************************************
!!
self._finalize_license_expression()
running bdist_wheel
running build
running build_py
creating build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/yaml.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/wrapper.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/plotting.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/outputs.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/lightcones.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/inputs.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/cli.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/cache_tools.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/_version.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/_utils.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/_logging.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/_cfg.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
copying src/py21cmfast/__init__.py -> build/lib.linux-x86_64-cpython-312/py21cmfast
creating build/lib.linux-x86_64-cpython-312/py21cmfast/_data
copying src/py21cmfast/_data/__init__.py -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
running egg_info
writing src/21cmFAST.egg-info/PKG-INFO
writing dependency_links to src/21cmFAST.egg-info/dependency_links.txt
writing entry points to src/21cmFAST.egg-info/entry_points.txt
writing requirements to src/21cmFAST.egg-info/requires.txt
writing top-level names to src/21cmFAST.egg-info/top_level.txt
ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any
reading manifest file 'src/21cmFAST.egg-info/SOURCES.txt'
adding license file 'LICENSE'
adding license file 'AUTHORS.rst'
writing manifest file 'src/21cmFAST.egg-info/SOURCES.txt'
/tmp/pip-build-env-t5twjizk/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'py21cmfast._data.x_int_tables' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'py21cmfast._data.x_int_tables' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'py21cmfast._data.x_int_tables' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'py21cmfast._data.x_int_tables' to be distributed and are
already explicitly excluding 'py21cmfast._data.x_int_tables' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
/tmp/pip-build-env-t5twjizk/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'py21cmfast.src' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'py21cmfast.src' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'py21cmfast.src' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'py21cmfast.src' to be distributed and are
already explicitly excluding 'py21cmfast.src' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
creating build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/21cmFAST.h -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/BrightnessTemperatureBox.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/Constants.h -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/FindHaloes.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/GenerateICs.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/Globals.h -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/IonisationBox.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/PerturbField.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/PerturbHaloField.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/SpinTemperatureBox.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/UsefulFunctions.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/bubble_helper_progs.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/cexcept.h -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/dft.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/elec_interp.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/exceptions.h -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/heating_helper_progs.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/indexing.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/logger.h -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/ps.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/recombinations.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/src/subcell_rsds.c -> build/lib.linux-x86_64-cpython-312/py21cmfast/src
copying src/py21cmfast/_data/Lyman_alpha_heating_table.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
copying src/py21cmfast/_data/Transfers_z0.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
copying src/py21cmfast/_data/kappa_eH_table.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
copying src/py21cmfast/_data/kappa_pH_table.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
copying src/py21cmfast/_data/recfast_LCDM.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
copying src/py21cmfast/_data/stellar_spectra.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data
creating build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-1.0.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-1.3.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-1.6.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-2.0.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-2.3.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-2.6.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-3.0.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-3.3.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-3.6.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/log_xi_-4.0.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/xi_0.500.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/xi_0.900.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/xi_0.990.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
copying src/py21cmfast/_data/x_int_tables/xi_0.999.dat -> build/lib.linux-x86_64-cpython-312/py21cmfast/_data/x_int_tables
running build_ext
generating cffi module 'build/temp.linux-x86_64-cpython-312/py21cmfast.c_21cmfast.c'
creating build/temp.linux-x86_64-cpython-312
building 'py21cmfast.c_21cmfast' extension
creating build/temp.linux-x86_64-cpython-312/build/temp.linux-x86_64-cpython-312
gcc -pthread -B /opt/miniconda3/compiler_compat -fno-strict-overflow -Wsign-compare -DNDEBUG -O2 -Wall -fPIC -O2 -isystem /opt/miniconda3/include -fPIC -O2 -isystem /opt/miniconda3/include -fPIC -I/tmp/pip-install-a09n5yan/21cmfast_5f9692c395fa45a5952d57195e300800/src/py21cmfast/src -I/opt/miniconda3/include/python3.12 -c build/temp.linux-x86_64-cpython-312/py21cmfast.c_21cmfast.c -o build/temp.linux-x86_64-cpython-312/build/temp.linux-x86_64-cpython-312/py21cmfast.c_21cmfast.o -w --verbose -Ofast -fopenmp
Using built-in specs.
COLLECT_GCC=/usr/bin/gcc
Target: x86_64-pc-linux-gnu
Configured with: /build/gcc/src/gcc/configure --enable-languages=ada,c,c++,d,fortran,go,lto,m2,objc,obj-c++,rust,cobol --enable-bootstrap --prefix=/usr --libdir=/usr/lib --libexecdir=/usr/lib --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=https://gitlab.archlinux.org/archlinux/packaging/packages/gcc/-/issues --with-build-config=bootstrap-lto --with-linker-hash-style=gnu --with-system-zlib --enable-__cxa_atexit --enable-cet=auto --enable-checking=release --enable-clocale=gnu --enable-default-pie --enable-default-ssp --enable-gnu-indirect-function --enable-gnu-unique-object --enable-libstdcxx-backtrace --enable-link-serialization=1 --enable-linker-build-id --enable-lto --enable-multilib --enable-plugin --enable-shared --enable-threads=posix --disable-libssp --disable-libstdcxx-pch --disable-werror
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 15.1.1 20250425 (GCC)
COLLECT_GCC_OPTIONS='-pthread' '-B' '/opt/miniconda3/compiler_compat' '-fno-strict-overflow' '-Wsign-compare' '-D' 'NDEBUG' '-O2' '-Wall' '-O2' '-isystem' '/opt/miniconda3/include' '-O2' '-isystem' '/opt/miniconda3/include' '-fPIC' '-I' '/tmp/pip-install-a09n5yan/21cmfast_5f9692c395fa45a5952d57195e300800/src/py21cmfast/src' '-I' '/opt/miniconda3/include/python3.12' '-c' '-o' 'build/temp.linux-x86_64-cpython-312/build/temp.linux-x86_64-cpython-312/py21cmfast.c_21cmfast.o' '-w' '-v' '-Ofast' '-fopenmp' '-mtune=generic' '-march=x86-64' '-pthread' '-dumpdir' 'build/temp.linux-x86_64-cpython-312/build/temp.linux-x86_64-cpython-312/'
/usr/lib/gcc/x86_64-pc-linux-gnu/15.1.1/cc1 -quiet -v -I /tmp/pip-install-a09n5yan/21cmfast_5f9692c395fa45a5952d57195e300800/src/py21cmfast/src -I /opt/miniconda3/include/python3.12 -D_REENTRANT -D NDEBUG -isystem /opt/miniconda3/include -isystem /opt/miniconda3/include build/temp.linux-x86_64-cpython-312/py21cmfast.c_21cmfast.c -quiet -dumpdir build/temp.linux-x86_64-cpython-312/build/temp.linux-x86_64-cpython-312/ -dumpbase py21cmfast.c_21cmfast.c -dumpbase-ext .c -mtune=generic -march=x86-64 -O2 -O2 -O2 -Ofast -Wsign-compare -Wall -w -version -fno-strict-overflow -fPIC -fopenmp -o /tmp/ccPKa4H2.s
GNU C23 (GCC) version 15.1.1 20250425 (x86_64-pc-linux-gnu)
compiled by GNU C version 15.1.1 20250425, GMP version 6.3.0, MPFR version 4.2.2, MPC version 1.3.1, isl version isl-0.27-GMP
GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
ignoring duplicate directory "/opt/miniconda3/include"
ignoring nonexistent directory "/usr/lib/gcc/x86_64-pc-linux-gnu/15.1.1/../../../../x86_64-pc-linux-gnu/include"
#include "..." search starts here:
#include <...> search starts here:
/tmp/pip-install-a09n5yan/21cmfast_5f9692c395fa45a5952d57195e300800/src/py21cmfast/src
/opt/miniconda3/include/python3.12
/opt/miniconda3/include
/usr/lib/gcc/x86_64-pc-linux-gnu/15.1.1/include
/usr/local/include
/usr/lib/gcc/x86_64-pc-linux-gnu/15.1.1/include-fixed
/usr/include
End of search list.
Compiler executable checksum: 335c205337bb594afdc1dd844ba56be5
In file included from build/temp.linux-x86_64-cpython-312/py21cmfast.c_21cmfast.c:576:
/tmp/pip-install-a09n5yan/21cmfast_5f9692c395fa45a5952d57195e300800/src/py21cmfast/src/GenerateICs.c:13:10: fatal error: gsl/gsl_interp.h: No such file or directory
13 | #include <gsl/gsl_interp.h>
| ^~~~~~~~~~~~~~~~~~
compilation terminated.
error: command '/usr/bin/gcc' failed with exit code 1
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for 21cmfast
Building wheel for cosmotile (pyproject.toml) ... done
Created wheel for cosmotile: filename=cosmotile-0.2.4-py3-none-any.whl size=10921 sha256=fcda4f560c65573e2da29d9ba5f4a5e1e6ff69b16249e26519f5356696605512
Stored in directory: /home/sirius/.cache/pip/wheels/c4/48/de/9ea0d0ccad54ce08f23fa80d0a357f75bc7192c1928ffd22d9
Successfully built cosmotile
Failed to build 21cmfast
ERROR: Failed to build installable wheels for some pyproject.toml based projects (21cmfast)
|
