Building CMOR 3.7.1 with gfortran 10.1 fails at loader with several errors about cmor

[mauzey1]

@strandwg Is this on Linux or Mac? How was gfortran 10.1 installed on your machine? Through conda?

[strandwg]

I was advised to use gfortran 10.1 as that's what CMOR was tested with as the Fortran compiler. I have no idea if gfortran was built with conda; the machine I'm using is our data processing platform which is Linux-based.

[mauzey1]

Would you mind providing the build steps that you went through to get to this point? I assume you created an environment for CMOR using conda create -n CMOR -c conda-forge cmor since our discussion in PCMDI/cmor3_documentation#120.

Did you use both gcc and gfortran installed on your machine when building Fortran programs with CMOR? In our tests, we would install both compilers from conda-forge.

conda install -n CMOR -c conda-forge gcc_linux-64 gfortran_linux-64
export LDSHARED_FLAGS="-shared -pthread"

# Set prefix for configure step.
# ------------------------------------------------
export PREFIX=$(python -c "import sys; print(sys.prefix)")

# Configure the Makefile.
# ------------------------------------------------
./configure --prefix=$PREFIX --with-python --with-uuid=$PREFIX --with-json-c=$PREFIX --with-udunits2=$PREFIX --with-netcdf=$PREFIX  --enable-verbose-test

# Run the tests with the Makefile (without rebuilding CMOR).
# ------------------------------------------------
make test -o cmor -o python

[strandwg]

I use the system-installed compilers:

#!/bin/sh

source /etc/profile.d/modules.sh

module load conda
module load gnu/10.1.0

install cmor

------------------------------------------------

conda create -n CMOR -c conda-forge cmor
conda activate CMOR

Clone the CMIP6 table to your working directory.

------------------------------------------------

mkdir CMIP6_work
cd CMIP6_work

Disable SSL verification (firewall only).

-----------------------------------------

export GIT_SSL_NO_VERIFY=true
git clone https://github.com/PCMDI/cmip6-cmor-tables.git

[mauzey1]

@strandwg Do you know which version of binutils you are using on your system? I found a page that has the same error message you are getting with the solution to use binutils-2.32 or above.

https://wiki.gentoo.org/wiki/Project:Toolchain/Binutils_2.32_upgrade_notes/elfutils_0.175:_unable_to_initialize_decompress_status_for_section_.debug_info

[durack1]

@strandwg this issue has been unanswered for over a year, so closing - please reopen if an ongoing issue needs attention