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For linux,
sudo apt-get libopenblas-dev gcc gfortran make g++ build-essential
seems should be
sudo apt-get install libopenblas-dev gcc gfortran make g++ build-essential
When I tried to run "pip install ." which is the last step, following error occured.
One told me this error is due to the environment, and I should check the version of packages. Could you provide the packages required by pybammsolver?
Processing /home/shipeng-li/下载/pybammsolvers-main
Installing build dependencies ... done
Getting requirements to build wheel ... done
Preparing metadata (pyproject.toml) ... done
Requirement already satisfied: casadi in /home/shipeng-li/miniconda3/lib/python3.12/site-packages (from pybammsolvers==0.0.5) (3.6.7)
Collecting numpy<2.0 (from pybammsolvers==0.0.5)
Using cached numpy-1.26.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
Using cached numpy-1.26.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.0 MB)
Building wheels for collected packages: pybammsolvers
Building wheel for pybammsolvers (pyproject.toml) ... error
error: subprocess-exited-with-error
× Building wheel for pybammsolvers (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [343 lines of output]
running bdist_wheel
running build
running build_py
creating build/lib.linux-x86_64-cpython-312/pybammsolvers
copying src/pybammsolvers/version.py -> build/lib.linux-x86_64-cpython-312/pybammsolvers
copying src/pybammsolvers/__init__.py -> build/lib.linux-x86_64-cpython-312/pybammsolvers
running egg_info
writing src/pybammsolvers.egg-info/PKG-INFO
writing dependency_links to src/pybammsolvers.egg-info/dependency_links.txt
writing requirements to src/pybammsolvers.egg-info/requires.txt
writing top-level names to src/pybammsolvers.egg-info/top_level.txt
reading manifest file 'src/pybammsolvers.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'src/pybammsolvers.egg-info/SOURCES.txt'
/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybammsolvers.idaklu_source' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pybammsolvers.idaklu_source' 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 'pybammsolvers.idaklu_source' 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 'pybammsolvers.idaklu_source' to be distributed and are
already explicitly excluding 'pybammsolvers.idaklu_source' 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-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybammsolvers.idaklu_source.Expressions' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pybammsolvers.idaklu_source.Expressions' 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 'pybammsolvers.idaklu_source.Expressions' 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 'pybammsolvers.idaklu_source.Expressions' to be distributed and are
already explicitly excluding 'pybammsolvers.idaklu_source.Expressions' 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-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybammsolvers.idaklu_source.Expressions.Base' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pybammsolvers.idaklu_source.Expressions.Base' 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 'pybammsolvers.idaklu_source.Expressions.Base' 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 'pybammsolvers.idaklu_source.Expressions.Base' to be distributed and are
already explicitly excluding 'pybammsolvers.idaklu_source.Expressions.Base' 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-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybammsolvers.idaklu_source.Expressions.Casadi' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pybammsolvers.idaklu_source.Expressions.Casadi' 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 'pybammsolvers.idaklu_source.Expressions.Casadi' 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 'pybammsolvers.idaklu_source.Expressions.Casadi' to be distributed and are
already explicitly excluding 'pybammsolvers.idaklu_source.Expressions.Casadi' 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-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybammsolvers.idaklu_source.Expressions.IREE' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'pybammsolvers.idaklu_source.Expressions.IREE' 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 'pybammsolvers.idaklu_source.Expressions.IREE' 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 'pybammsolvers.idaklu_source.Expressions.IREE' to be distributed and are
already explicitly excluding 'pybammsolvers.idaklu_source.Expressions.IREE' 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)
copying src/pybammsolvers/idaklu.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers
creating build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolver.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolver.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolverGroup.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolverGroup.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolverOpenMP.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolverOpenMP.inl -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolverOpenMP_solvers.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IDAKLUSolverOpenMP_solvers.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IdakluJax.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/IdakluJax.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/Options.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/Options.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/Solution.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/Solution.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/SolutionData.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/SolutionData.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/common.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/common.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/idaklu_solver.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/observe.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/observe.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/sundials_functions.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
copying src/pybammsolvers/idaklu_source/sundials_functions.inl -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source
creating build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions
copying src/pybammsolvers/idaklu_source/Expressions/Expressions.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions
creating build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Base
copying src/pybammsolvers/idaklu_source/Expressions/Base/Expression.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Base
copying src/pybammsolvers/idaklu_source/Expressions/Base/ExpressionSet.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Base
copying src/pybammsolvers/idaklu_source/Expressions/Base/ExpressionTypes.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Base
creating build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Casadi
copying src/pybammsolvers/idaklu_source/Expressions/Casadi/CasadiFunctions.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Casadi
copying src/pybammsolvers/idaklu_source/Expressions/Casadi/CasadiFunctions.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/Casadi
creating build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/IREEBaseFunction.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/IREEFunction.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/IREEFunctions.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/IREEFunctions.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/ModuleParser.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/ModuleParser.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/iree_jit.cpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
copying src/pybammsolvers/idaklu_source/Expressions/IREE/iree_jit.hpp -> build/lib.linux-x86_64-cpython-312/pybammsolvers/idaklu_source/Expressions/IREE
running build_ext
-- The C compiler identification is GNU 13.3.0
-- The CXX compiler identification is GNU 13.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
CMake Error at CMakeLists.txt:42 (add_subdirectory):
add_subdirectory given source "pybind11" which is not an existing
directory.
PYBAMM_IDAKLU_EXPR_CASADI: ON
PYBAMM_IDAKLU_EXPR_IREE: OFF
CMake Error at CMakeLists.txt:82 (pybind11_add_module):
Unknown CMake command "pybind11_add_module".
-- Configuring incomplete, errors occurred!
---------- Running CMake for IDAKLU solver ----------------------------------------
Traceback (most recent call last):
File "/home/shipeng-li/miniconda3/lib/python3.12/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 353, in <module>
main()
File "/home/shipeng-li/miniconda3/lib/python3.12/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 335, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/shipeng-li/miniconda3/lib/python3.12/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 251, in build_wheel
return _build_backend().build_wheel(wheel_directory, config_settings,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/build_meta.py", line 438, in build_wheel
return _build(['bdist_wheel', '--dist-info-dir', str(metadata_directory)])
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/build_meta.py", line 426, in _build
return self._build_with_temp_dir(
^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/build_meta.py", line 407, in _build_with_temp_dir
self.run_setup()
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/build_meta.py", line 320, in run_setup
exec(code, locals())
File "<string>", line 285, in <module>
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/__init__.py", line 117, in setup
return distutils.core.setup(**attrs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/core.py", line 186, in setup
return run_commands(dist)
^^^^^^^^^^^^^^^^^^
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/core.py", line 202, in run_commands
dist.run_commands()
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 1002, in run_commands
self.run_command(cmd)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/dist.py", line 999, in run_command
super().run_command(command)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 1021, in run_command
cmd_obj.run()
File "<string>", line 232, in run
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/command/bdist_wheel.py", line 369, in run
self.run_command("build")
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/cmd.py", line 357, in run_command
self.distribution.run_command(command)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/dist.py", line 999, in run_command
super().run_command(command)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 1021, in run_command
cmd_obj.run()
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/command/build.py", line 140, in run
self.run_command(cmd_name)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/cmd.py", line 357, in run_command
self.distribution.run_command(command)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/dist.py", line 999, in run_command
super().run_command(command)
File "/tmp/pip-build-env-onwpruwr/overlay/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 1021, in run_command
cmd_obj.run()
File "<string>", line 138, in run
File "/home/shipeng-li/miniconda3/lib/python3.12/subprocess.py", line 571, in run
raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command '['cmake', '/home/shipeng-li/下载/pybammsolvers-main', '-DCMAKE_BUILD_TYPE=RELEASE', '-DPYTHON_EXECUTABLE=/home/shipeng-li/miniconda3/bin/python', '-DUSE_PYTHON_CASADI=TRUE', '-DPYBAMM_IDAKLU_EXPR_CASADI=ON', '-DPYBAMM_IDAKLU_EXPR_IREE=OFF', '-DSuiteSparse_ROOT=/home/shipeng-li/下载/pybammsolvers-main/.idaklu', '-DSUNDIALS_ROOT=/home/shipeng-li/下载/pybammsolvers-main/.idaklu']' returned non-zero exit status 1.
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for pybammsolvers
Failed to build pybammsolvers
ERROR: ERROR: Failed to build installable wheels for some pyproject.toml based projects (pybammsolvers)
The text was updated successfully, but these errors were encountered:
For linux,
sudo apt-get libopenblas-dev gcc gfortran make g++ build-essential
seems should be
sudo apt-get install libopenblas-dev gcc gfortran make g++ build-essential
When I tried to run "pip install ." which is the last step, following error occured.
One told me this error is due to the environment, and I should check the version of packages. Could you provide the packages required by pybammsolver?
The text was updated successfully, but these errors were encountered: