GCHP 14.1.1 Compilation Error

[helpyuan]

Name and Institution (Required)

Name: liumy
Institution: Chinese Academy of Meteorological Sciences

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Description of your issue or question

Hi, I am a newcomer to GCHP and I am trying to install GCHP according to the tutorial (https://gchp.readthedocs.io/en/latest/user-guide/compiling.html#modify -Build settings). Now, I have created a new directory and run "CMake..", and the results are similar to the case in the tutorial, so I started running "make -j", but it gave me an error.

I have no clue about this error because every step I take is based on the tutorial. I hope to receive your help.

Please provide as much detail as possible. Always include the GCHP version number and any relevant configuration and log files.

Software:
GCHP v14.1.1
gcc 13.1.0
openmpi 4.1.5
esmf 8.3.0
netcdf 4.8.1

The relevant log files are as follows：
compiler_make.log.txt
compiler_make-j.log.txt
CMakeCache.txt
ecbuild.log
cmake.log.txt

[lizziel]

Hi @helpyuan, welcome to the GEOS-Chem community. The error you are getting is happening immediately after you start building.

[  0%] Building Fortran object src/MAPL/shared/Constants/CMakeFiles/MAPL.constants.dir/InternalConstants.F90.o
gfortran: fatal error: no input files
compilation terminated.
/bin/sh: -ffree-line-length-none: command not found

Could you write out exactly what you are typing at the command line and where (which directory you are in) when configuring and building?

[helpyuan]

Hi @lizziel, here are my steps:

1. git clone https://github.com/geoschem/GCHP.git GCHP
2. git checkout 14.1.1
3. git submodule update --init --recursive
4. git status, and output is as follow:
   (# HEAD detached at 14.1.1
   nothing to commit, working directory clean)
5. cd GCHP/
6. mkdir build & cd build
7. cmake ..
   note: the running result is cmake.log.txt
8. make -j or make
   note: the running results are compiler_make-j.log.txt andcompiler_make.log.txt, respectively.

These are all the operations I can currently run. When configuring and building, I am in the build directory.

[helpyuan]

This is the directory content of src/MAPL/shared/Constants/CMakeFiles/MAPL.constants.dir/.
I hope it will be helpful to you.

[lizziel]

Hi @helpyuan, I have not been able to reproduce this and do not see anything obviously wrong in your CMakeCache.txt. In your reported steps Step 5 should be right after Step 1, but I assume that is what you did since otherwise checking out the tag would not work.

To check if this is an environment issue or an issue in GCHP-specific libraries, could you download GEOS-Chem Classic 14.1.1 and try to build that using your same environment?

git clone https://github.com/geoschem/gcclassic.git code.gcclassic
cd code.gcclassic
git checkout 14.1.1
git submodule update --init --recursive
mkdir build
cd build
cmake ..
make

[helpyuan]

Hi @lizziel, I have followed your suggestions and carried out the relevant operations.

1. git clone https://github.com/geoschem/gcclassic.git code.gcclassic
2. cd code.gcclassic
3. git checkout 14.1.1
   
4. git submodule update --init --recursive
   
5. mkdir build
6. cd build
7. cmake ..
   cmake.log.txt
   CMakeCache.txt
8. make
   make.log.txt

The environment for compilingGEOS-Chem Classic 14.1.1 is the same as when compiling GCHP 14.1.1, but compiling GEOS-Chem Classic 14.1.1 seems to have succeeded. How should I check the problem next?

[lizziel]

Hi @helpyuan, this is puzzling since the error in GCHP is happening when compiling the very first file, as if the basic usage of gfortran is broken, such as a space where there should not be one.

[  0%] Building Fortran object src/MAPL/shared/Constants/CMakeFiles/MAPL.constants.dir/InternalConstants.F90.o
gfortran: fatal error: no input files
compilation terminated.
/bin/sh: -ffree-line-length-none: command not found
make[2]: *** [src/MAPL/shared/Constants/CMakeFiles/MAPL.constants.dir/InternalConstants.F90.o] Error 127
make[1]: *** [src/MAPL/shared/Constants/CMakeFiles/MAPL.constants.dir/all] Error 2
make: *** [all] Error 2

Here are a few thoughts:

1. Try building GCHP again but using command make VERBOSE=1
2. Would you be able to try building with a version of gfortran that is before 13, or try Intel compilers?
3. I don't think this is a MAPL issue, but it does seem to be specific to GCHP's build system since GC-Classic builds fine. I am therefore bringing in GEOS build system and fortran expert @mathomp4. Matt, have you seen anything like this before in GEOS? Any known problems with GNU 13.1?

[lizziel]

Heads up I will be away until July 11th.

[helpyuan]

Hi @lizziel, thank you for your suggestions. The results of my attempt are as follows:

1. Try building GCHP again but using command make VERBOSE=1
   make_verbose=1.log.txt

2. Would you be able to try building with a version of gfortran that is before 13, or try Intel compilers?
   I tried using gfortran-12.3.0 to build GCHP-14.1.1, but the results were the same as gfortran-13.1.1.
   cmake_gnu-12.3.0.log.txt
   CMakeCache_gnu-12.3.0.txt
   make_gnu-12.3.0.log.txt
   make_gnu-12.3.0_verbose=1.log.txt

In addition, I attempted to build GCHP-13.3.4 using gfortran-12.3.0 and encountered similar issues.
CMakeCache_gchp13.3.4_gnu12.3.0.txt
cmake_gchp13.3.4_gnu12.3.0.log.txt
make_gchp13.3.4_gnu12.3.0.log.txt
make_gchp13.3.4_gnu12.3.0_verbose=1.log.txt

[mathomp4]

Okay. First thing, GCC 13 does not like our model. We haven't figure it out yet, but it seemed like a compiler issue. Hopefully soon we can find a workaround. So, sticking with GCC 12 is a good idea.

That said, your issue is more basic than that. Something...weird is going on with the options:

[ 0%] Building Fortran object src/MAPL/shared/Constants/CMakeFiles/MAPL.constants.dir/InternalConstants.F90.o
cd /data/home/liumy/GCHP/src/GCHP/build/src/MAPL/shared/Constants && /data/home/liumy/tools/gcc-12.3.0/bin/gfortran -DBUILD_WITH_PFLOGGER -DFORTRAN_COMPILER_SUPPORTS_ASSUMED_TYPE -DFORTRAN_COMPILER_SUPPORTS_FINDLOC -DHAS_NETCDF3 -DHAS_NETCDF4 -DNETCDF_NEED_NF_MPIIO -D__GFORTRAN__ -I/data/home/liumy/GCHP/src/GCHP/src/MAPL/shared/Constants -I/data/home/liumy/GCHP/src/GCHP/build/src/MAPL/shared/Constants -I/data/home/liumy/GCHP/src/GCHP/build/include/MAPL.constants -I/data/home/liumy/GCHP/src/GCHP/src/MAPL/include -m64;-ffree-line-length-none -O2 -g -DNDEBUG -fallow-argument-mismatch -fallow-invalid-boz -J../../../../include/MAPL.constants -fPIC -c /data/home/liumy/GCHP/src/GCHP/src/MAPL/shared/Constants/InternalConstants.F90 -o CMakeFiles/MAPL.constants.dir/InternalConstants.F90.o
gfortran: fatal error: no input files
compilation terminated.
/bin/sh: -ffree-line-length-none: command not found

For some reason you are getting a semicolon in your build options, so Linux is seeing that as two different commands.

Do you know what is setting that -m64 flag? We don't it in any options internally so something external to MAPL seems to be passing it in. (Indeed, I haven't set that flag in a looooooong time. I forgot it even was a flag it's been so long since I've been on an i686 system.)

[helpyuan]

Thank you for reminding me @mathomp4! -m64 is my environment variable, and once I remove it, I can compile and install it normally.

My issue has been successfully resolved. Thank you for your help @lizziel @mathomp4 !

[yantosca]

Thanks @helpyuan for the update! We can now close out this issue. Let us know if you encounter other problems.