error when install pycrtm

[Shaofei-Wang224]

Hi,

When I installed pycrtm, some errors occurred. The information are shown in
install.log
setup.txt

Can you help me to solve this problem?

Thanks!

[karpob]

Could you list the contents of the following directory?
/home/wsf/mambaforge-pypy3/envs/pyarts-dev/include

I suspect the automatic netcdf locator may not work correctly depending on how netcdf is installed. I have not committed it to the master branch, but you may want to checkout and try the following bugfix:
bugfix/splitNetcdfInstallsSpack

https://github.com/JCSDA/pycrtm/tree/bugfix/splitNetcdfInstallsSpack

[Shaofei-Wang224]

Hi, @karpob

Thank you very much for you reply.

The contents of the /home/wsf/mambaforge-pypy3/envs/pyarts-dev/include are:
ls.log

I have tried the bugfix/splitNetcdfInstallsSpack, it works but another error occurred with the following information:
install.log

[karpob]

The CRTM library you compiled needs an additional "-fPIC" flag in cmake/compiler_flags_GNU_Fortran.cmake
You can see this in the log:

pp/pycrtm/crtm/lib//libcrtm.a(CRTM_Atmosphere_Define.o): relocation R_X86_64_PC32 against symbol `__crtm_atmosphere_define_MOD_climatology_model_name' can not be used when making a shared object; recompile with -fPIC

You may have better luck with a more recent CRTM 2.4.0 release (if it is indeed alpha, it's a bit dated), however, for a quick fix I would check that -fPIC is in the CRTM library build in cmake/compiler_flags_GNU_Fortran.cmake

set( CMAKE_Fortran_LINK_FLAGS    "-fopenmp -fPIC" )

You may also need to add it to CMAKE_FORTRAN_FLAGS:

set( CMAKE_Fortran_FLAGS "${CMAKE_Fortran_FLAGS}  ...

Once you have added -fPIC you will need to recompile the CRTM library. Afterward proceed with the pyCRTM setup.