Console Output

+ source /etc/profile.d/larson-group.sh
++ export GIT_EDITOR=vi
++ GIT_EDITOR=vi
++ export SVN_EDITOR=vi
++ SVN_EDITOR=vi
++ export OMP_STACKSIZE=1048579
++ OMP_STACKSIZE=1048579
++ export LMOD_ROOT=/opt/lmod/
++ LMOD_ROOT=/opt/lmod/
++ source /opt/lmod//lmod/lmod/init/bash
+++ '[' -z '' ']'
+++ case "$-" in
+++ __lmod_vx=x
+++ '[' -n x ']'
+++ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-cascadelake/gcc-12.2.0/lmod-8.7.37-bi3kyxcdrfgw3y7vv2k7c5rjxg75qzju/lmod/lmod/init/bash)
Shell debugging restarted
+++ unset __lmod_vx
+++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit
++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
+ module load gcc netcdf-fortran
+ '[' -z '' ']'
+ case "$-" in
+ __lmod_sh_dbg=x
+ '[' -n x ']'
+ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for Lmod's output
Lmod Warning:
-------------------------------------------------------------------------------
The following dependent module(s) are not currently loaded:
gcc-runtime/13.1.0-gzedt3f (required by: mpich/4.2.1, hdf5/1.14.3-42x3zrv,
netcdf-c/4.9.2, netcdf-fortran/4.5.3)
-------------------------------------------------------------------------------



Shell debugging restarted
+ unset __lmod_sh_dbg
+ return 0
+ ulimit -s 8388608
+ python3 tests/run_jax_comparison_mutation_test.py
==> No compatible Python found for cpu; uv will download Python 3.12
==> Installing uv 0.11.32 in /home/jenkins/workspace/clubb_jax_tests_branch/.clubb-jax-tools/bin
downloading uv 0.11.32 x86_64-unknown-linux-gnu
installing to /home/jenkins/workspace/clubb_jax_tests_branch/.clubb-jax-tools/bin
  uv
  uvx
everything's installed!
==> uv is ready: uv 0.11.32 (x86_64-unknown-linux-gnu)
Downloading cpython-3.12.13-linux-x86_64-gnu (download) (32.6MiB)
 Downloaded cpython-3.12.13-linux-x86_64-gnu (download)
Using CPython 3.12.13
Creating virtual environment at: .venv-jax
Activate with: source .venv-jax/bin/activate
==> Installing JAX 0.11.0 (cpu) and requirements from /home/jenkins/workspace/clubb_jax_tests_branch/clubb_jax/requirements.txt
Using Python 3.12.13 environment at: .venv-jax
Resolved 15 packages in 315ms
Downloading pygments (1.2MiB)
Downloading jax (3.1MiB)
Downloading scipy (33.7MiB)
Downloading numpy (15.9MiB)
Downloading cftime (1.6MiB)
Downloading netcdf4 (9.7MiB)
Downloading jaxlib (83.2MiB)
 Downloaded cftime
 Downloaded pygments
 Downloaded netcdf4
 Downloaded jax
 Downloaded numpy
 Downloaded scipy
 Downloaded jaxlib
Prepared 15 packages in 3.86s
Installed 15 packages in 41ms
 + certifi==2026.7.22
 + cftime==1.6.6
 + iniconfig==2.3.0
 + jax==0.11.0
 + jaxlib==0.11.0
 + ml-dtypes==0.6.0
 + netcdf4==1.7.4
 + numpy==2.5.3
 + opt-einsum==3.4.0
 + packaging==26.3
 + pluggy==1.6.0
 + pygments==2.21.0
 + pytest==9.1.1
 + scipy==1.18.1
 + tabulate==0.10.0
CLUBB JAX runtime:
  Environment: /home/jenkins/workspace/clubb_jax_tests_branch/.venv-jax (Python 3.12)
  Accelerator: cpu
  JAX: 0.11.0 (jaxlib 0.11.0)
  Device: cpu:0
Mutation test artifacts: /home/jenkins/workspace/clubb_jax_tests_branch/output/tests/jax_comparison_mutation_lo7d22nx
Control: running unmodified BOMEX comparison...
/home/jenkins/workspace/clubb_jax_tests_branch/tests/run_jax_comparison_mutation_test.py:211: DeprecationWarning: Setting the shape on a NumPy array has been deprecated in NumPy 2.5.
As an alternative, you can create a new view using np.reshape (with copy=False if needed).
  names = [name.strip() for name in netCDF4.chartostring(dataset["param_name"][:])]
Control passed.
Mutation heating: running comparison...
PASS heating: thlm mean absolute difference 0.00015; failing columns [1, 2, 3, 4].
Mutation parameter_handling: running comparison...
PASS parameter_handling: wp3 mean absolute difference 9.25992e-07; failing columns [2, 3, 4].
Mutation first_column: running comparison...
PASS first_column: wp3 mean absolute difference 4.69019e-07; failing columns [2, 3, 4].
PASS: control matched; all 3 mutations caused numerical comparison failures with both models completing successfully.