error during the installation #382

popstar0426 · 2024-02-04T09:12:52Z

popstar0426
Feb 4, 2024

Description

During the installaton of DAfoam, there was only one error shown during the build of pyoptsparse 2.10.1.
happy@happy-VirtualBox:/dafoam/repos/pyoptsparse-2.10.1$ pip install wheel
Looking in indexes: https://pypi.tuna.tsinghua.edu.cn/simple
Requirement already satisfied: wheel in /home/happy/dafoam/packages/miniconda3/lib/python3.8/site-packages (0.36.2)
happy@happy-VirtualBox:/dafoam/repos/pyoptsparse-2.10.1$ pip install swig
Looking in indexes: https://pypi.tuna.tsinghua.edu.cn/simple
Requirement already satisfied: swig in /home/happy/dafoam/packages/miniconda3/lib/python3.8/site-packages (4.1.1)
happy@happy-VirtualBox:~/dafoam/repos/pyoptsparse-2.10.1$ pip install .
Looking in indexes: https://pypi.tuna.tsinghua.edu.cn/simple
Processing /home/happy/dafoam/repos/pyoptsparse-2.10.1
Installing build dependencies ... done
Getting requirements to build wheel ... error
error: subprocess-exited-with-error

× Getting requirements to build wheel did not run successfully.
│ exit code: 1
╰─> [146 lines of output]
ninja: Entering directory `/home/happy/dafoam/repos/pyoptsparse-2.10.1/meson_build'
[1/77] Compiling C object pyoptsparse/pyIPOPT/pyipoptcore.cpython-38-x86_64-linux-gnu.so.p/src_pyipoptcoremodule.c.o
In file included from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from ../pyoptsparse/pyIPOPT/src/hook.h:7,
from ../pyoptsparse/pyIPOPT/src/pyipoptcoremodule.c:9:
/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with "
| ^~~~~~~
../pyoptsparse/pyIPOPT/src/pyipoptcoremodule.c: In function ‘set_intermediate_callback’:
../pyoptsparse/pyIPOPT/src/pyipoptcoremodule.c:509:15: warning: variable ‘myowndata’ set but not used [-Wunused-but-set-variable]
509 | DispatchData myowndata;
| ^~~~~~~~~
[2/77] Compiling C object pyoptsparse/pyIPOPT/pyipoptcore.cpython-38-x86_64-linux-gnu.so.p/src_callback.c.o
In file included from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from ../pyoptsparse/pyIPOPT/src/hook.h:7,
from ../pyoptsparse/pyIPOPT/src/callback.c:36:
/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with "
| ^~~~~~~
[3/77] Generating pyoptsparse/pyNSGA2/nsga2_wrap.c with a custom command
FAILED: pyoptsparse/pyNSGA2/nsga2_wrap.c
/home/happy/dafoam/packages/miniconda3/bin/swig -o pyoptsparse/pyNSGA2/nsga2_wrap.c -python -interface nsga2 ../pyoptsparse/pyNSGA2/source/swig/nsga2.i
Traceback (most recent call last):
File "/home/happy/dafoam/packages/miniconda3/bin/swig", line 5, in
from swig import swig
ModuleNotFoundError: No module named 'swig'
[4/77] Linking target pyoptsparse/pyIPOPT/pyipoptcore.cpython-38-x86_64-linux-gnu.so
[5/77] Generating pyoptsparse/pySLSQP/slsqpmodule.c with a custom command
Reading fortran codes...
Reading file '../pyoptsparse/pySLSQP/source/f2py/slsqp.pyf' (format:free)
Post-processing...
Block: slsqp__user__routines
Block: slsqp_user_interface
Block: slfunc
Block: slgrad
Block: slsqp
Block: slsqp
In: ../pyoptsparse/pySLSQP/source/f2py/slsqp.pyf:slsqp:unknown_interface:slsqp
get_useparameters: no module slsqp__user__routines info used by slsqp
Block: openunit
Block: pyflush
Block: closeunit
Post-processing (stage 2)...
Building modules...
Constructing call-back function "cb_slfunc_in_slsqp__user__routines"
def slfunc(m,meq,la,n,f,c,x): return f,c
Constructing call-back function "cb_slgrad_in_slsqp__user__routines"
def slgrad(m,meq,la,n,f,c,g,a,x): return g,a
Building module "slsqp"...
Constructing wrapper function "slsqp"...
a = slsqp(m,meq,la,n,x,xl,xu,f,c,g,a,acc,iter,iprint,iout,ifile,mode,w,l_w,jw,l_jw,nfunc,ngrad,slfunc,slgrad,[slfunc_extra_args,slgrad_extra_args])
Constructing wrapper function "openunit"...
ierror = openunit(unitnum,filename,filestatus,fileaction)
Constructing wrapper function "pyflush"...
pyflush(unitnum)
Constructing wrapper function "closeunit"...
closeunit(unitnum)
Wrote C/API module "slsqp" to file "pyoptsparse/pySLSQP/slsqpmodule.c"
[6/77] Generating pyoptsparse/pyCONMIN/conminmodule.c with a custom command
Reading fortran codes...
Reading file '../pyoptsparse/pyCONMIN/source/f2py/conmin.pyf' (format:free)
Line #97 in ../pyoptsparse/pyCONMIN/source/f2py/conmin.pyf:" return "
crackline:3: No pattern for line
Post-processing...
Block: conmin__user__routines
Block: conmin_user_interface
Block: cnmnfun
Block: cnmngrd
Block: conmin
{}
In: ../pyoptsparse/pyCONMIN/source/f2py/conmin.pyf:conmin:unknown_interface:conmin
vars2fortran: No typespec for argument "ndv_".
{}
In: ../pyoptsparse/pyCONMIN/source/f2py/conmin.pyf:conmin:unknown_interface:conmin
vars2fortran: No typespec for argument "ncon_".
Block: conmin
In: ../pyoptsparse/pyCONMIN/source/f2py/conmin.pyf:conmin:unknown_interface:conmin
get_useparameters: no module conmin__user__routines info used by conmin
Block: openunit
Block: pyflush
Block: closeunit
Post-processing (stage 2)...
Building modules...
Constructing call-back function "cb_cnmnfun_in_conmin__user__routines"
def cnmnfun(n1,n2,x,aobj,g): return aobj,g
Constructing call-back function "cb_cnmngrd_in_conmin__user__routines"
def cnmngrd(n1,n2,x,aobj,g,ct,df,a,ic,nac): return df,a,ic,nac
Building module "conmin"...
Constructing wrapper function "conmin"...
conmin(ndv_,ncon_,x_,vlb_,vub_,obj_,g_,n1,n2,n3,n4,n5,iprint_,iout_,ifile,itmax_,delfun_,dabfun_,itrm_,nfeasct_,nfdg_,nfun_,ngrd_,cnmnfun,cnmngrd,[cnmnfun_extra_args,cnmngrd_extra_args])
Constructing wrapper function "openunit"...
ierror = openunit(unitnum,filename,filestatus,fileaction)
Constructing wrapper function "pyflush"...
pyflush(unitnum)
Constructing wrapper function "closeunit"...
closeunit(unitnum)
Constructing COMMON block support for "varable"...
aobj
Constructing COMMON block support for "output"...
iout
Constructing COMMON block support for "cnmn1"...
delfun,dabfun,fdch,fdchm,ct,ctmin,ctl,ctlmin,alphax,abobj1,theta,obj,ndv,ncon,nside,iprint,nfdg,nscal,linobj,itmax,itrm,icndir,igoto,nac,info,infog,iter
Wrote C/API module "conmin" to file "pyoptsparse/pyCONMIN/conminmodule.c"
Fortran 77 wrappers are saved to "pyoptsparse/pyCONMIN/conmin-f2pywrappers.f"
[7/77] Compiling C object pyoptsparse/pySLSQP/slsqp.cpython-38-x86_64-linux-gnu.so.p/.._fortranobject.c.o
In file included from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/f2py/src/fortranobject.h:13,
from ../pyoptsparse/fortranobject.c:2:
/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with "
| ^~~~~~~
[8/77] Compiling C object pyoptsparse/pyCONMIN/conmin.cpython-38-x86_64-linux-gnu.so.p/.._fortranobject.c.o
In file included from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from /tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/f2py/src/fortranobject.h:13,
from ../pyoptsparse/fortranobject.c:2:
/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with "
| ^~~~~~~
ninja: build stopped: subcommand failed.
INFO: autodetecting backend as ninja
INFO: calculating backend command to run: /tmp/pip-build-env-ud2ltx9g/overlay/bin/ninja -C /home/happy/dafoam/repos/pyoptsparse-2.10.1/meson_build

  Traceback (most recent call last):
    File "/home/happy/dafoam/packages/miniconda3/lib/python3.8/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 353, in <module>
      main()
    File "/home/happy/dafoam/packages/miniconda3/lib/python3.8/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/happy/dafoam/packages/miniconda3/lib/python3.8/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 118, in get_requires_for_build_wheel
      return hook(config_settings)
    File "/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/setuptools/build_meta.py", line 325, in get_requires_for_build_wheel
      return self._get_build_requires(config_settings, requirements=['wheel'])
    File "/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/setuptools/build_meta.py", line 295, in _get_build_requires
      self.run_setup()
    File "/tmp/pip-build-env-ud2ltx9g/overlay/lib/python3.8/site-packages/setuptools/build_meta.py", line 311, in run_setup
      exec(code, locals())
    File "<string>", line 81, in <module>
    File "<string>", line 52, in run_meson_build
  OSError: [Errno ['/tmp/pip-build-env-ud2ltx9g/overlay/bin/meson', 'compile', '-C', 'meson_build']] The meson compile command failed! Check the log at meson_build/compile.log for more information.
  [end of output]

note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error

× Getting requirements to build wheel did not run successfully.
│ exit code: 1
╰─> See above for output.

note: This error originates from a subprocess, and is likely not a problem with pip.

Code versions

Operating System: one system is ubuntu 20.04 installed with virtualbox, another testing system is native ubuntu 18.04
Python: Miniconda3-py38
OpenMPI: OpenMPI-3.1.6
CGNS: CGNS-4.1.2
PETSc: Petsc-3.14.6
Compiler: following https://dafoam.github.io/mydoc_installation_source.html
This repository:

ewu63 · 2024-02-04T17:15:38Z

ewu63
Feb 4, 2024
Maintainer

The actual error is

 ModuleNotFoundError: No module named 'swig'

Please make sure swig is installed correctly. The PyPI package is not currently tested so if it does not work, we recommend installing via your system package manager.

4 replies

popstar0426 Feb 4, 2024
Author

Thank you for your kind reply. Can you tell me the correct version of swig tested? We can not access the PyPI package via system package manager. The swig was installed by
:pip install swig -i https://pypi.tuna.tsinghua.edu.cn/simple
Requirement already satisfied: swig in /home/happy/dafoam/packages/miniconda3/lib/python3.8/site-packages (4.1.1)

popstar0426 Feb 5, 2024
Author

happy@happy-VirtualBox:~/dafoam/repos/pyoptsparse-2.10.1$ which swig
/home/happy/dafoam/packages/miniconda3/bin/swig

ewu63 Feb 5, 2024
Maintainer

Because pip creates a new isolated environment when building the package, the existing installation of swig will not work. There are a few options:

Modify pyproject.toml to include swig as a dependency and try again. This is not officially supported but may work for you --- in the future we may switch to this approach.
Install swig system-wide, preferably using a system package manager following our instructions.
If you do not need NSGA2, uninstall swig (maybe temporarily) and the installation should work, you'll just end up without NSGA2 which is the only optimizer that needs SWIG to compile.

Mohsin-Bashir Feb 29, 2024

Hi @popstar0426 how did you solve the problem? I am facing the same issue. Could you please let me know?

popstar0426 · 2024-03-01T00:11:47Z

popstar0426
Mar 1, 2024
Author

Dear all:    pip uninstall swig    sudo apt-get install swig    use the swig in system, not  in conda. Best regards!   

…

------------------ 原始邮件 ------------------ 发件人: "mdolab/pyoptsparse" ***@***.***>; 发送时间: 2024年2月29日(星期四) 中午12:39 ***@***.***>; ***@***.******@***.***>; 主题: Re: [mdolab/pyoptsparse] error during the installation (Discussion #382) Hi @popstar0426 how did you solve the problem? I am facing the same issue. Could you please let me know? — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you were mentioned.Message ID: ***@***.***>

1 reply

Mohsin-Bashir Mar 1, 2024

One more question, were you able to successfully run DaFoam regression tests on ubuntu virtual box?

popstar0426 · 2024-03-02T01:20:32Z

popstar0426
Mar 2, 2024
Author

No, the regression test stopped at "DATurboFoamSubsonic: Failed!" . Best regards!

…

------------------ 原始邮件 ------------------ 发件人: "mdolab/pyoptsparse" ***@***.***>; 发送时间: 2024年3月2日(星期六) 凌晨0:21 ***@***.***>; ***@***.******@***.***>; 主题: Re: [mdolab/pyoptsparse] error during the installation (Discussion #382) One more question, were you able to successfully run DaFoam regression tests on ubuntu virtual box? — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you were mentioned.Message ID: ***@***.***>

1 reply

Mohsin-Bashir Mar 2, 2024

ok. Thank you!

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error during the installation #382

popstar0426 Feb 4, 2024

Description

Code versions

Replies: 3 comments · 6 replies

ewu63 Feb 4, 2024 Maintainer

popstar0426 Feb 4, 2024 Author

popstar0426 Feb 5, 2024 Author

ewu63 Feb 5, 2024 Maintainer

Mohsin-Bashir Feb 29, 2024

popstar0426 Mar 1, 2024 Author

Mohsin-Bashir Mar 1, 2024

popstar0426 Mar 2, 2024 Author

Mohsin-Bashir Mar 2, 2024

popstar0426
Feb 4, 2024

Replies: 3 comments 6 replies

ewu63
Feb 4, 2024
Maintainer

popstar0426 Feb 4, 2024
Author

popstar0426 Feb 5, 2024
Author

ewu63 Feb 5, 2024
Maintainer

popstar0426
Mar 1, 2024
Author

popstar0426
Mar 2, 2024
Author