[test]: Warnings reported in test suites

[haoyu-zc]

Thanks to @kf-cuanschutz , there's a test log attached below containing the warnings:

Using it on the L40 GPU partition definitely fixed the issue. The nvidia driver there is 570.86.15.

(ccc-gpu) [kefo0001_amc@c3gpu-a9-u19-1 ccc-gpu]$ nvidia-smi
Mon Feb 24 14:33:32 2025       
+-----------------------------------------------------------------------------------------+
| NVIDIA-SMI 570.86.15              Driver Version: 570.86.15      CUDA Version: 12.8     |
|-----------------------------------------+------------------------+----------------------+
| GPU  Name                 Persistence-M | Bus-Id          Disp.A | Volatile Uncorr. ECC |
| Fan  Temp   Perf          Pwr:Usage/Cap |           Memory-Usage | GPU-Util  Compute M. |
|                                         |                        |               MIG M. |
|=========================================+========================+======================|
|   0  NVIDIA L40                     Off |   00000000:21:00.0 Off |                    0 |
| N/A   30C    P8             35W /  300W |       1MiB /  46068MiB |      0%      Default |
|                                         |                        |                  N/A |
+-----------------------------------------+------------------------+----------------------+
                                                                                         
+-----------------------------------------------------------------------------------------+
| Processes:                                                                              |
|  GPU   GI   CI              PID   Type   Process name                        GPU Memory |
|        ID   ID                                                               Usage      |
|=========================================================================================|
|  No running processes found                                                             |
+-----------------------------------------------------------------------------------------+

All tests seem to have passed. I got many warnings related to shared_memory_size. I did get quite a few warnings as what is shown below, that I will look into. To see the full log test please refer to the log document I attached.
ccc_gpu_tests.log.txt

================================================================================================ warnings summary ================================================================================================
tests/test_coef_pval.py: 13 warnings
  /scratch/alpine/.xsede.org/kfotso/software/anaconda/envs/ccc-gpu/lib/python3.10/site-packages/numpy/core/numeric.py:407: RuntimeWarning: invalid value encountered in cast
    multiarray.copyto(res, fill_value, casting='unsafe')
tests/test_conf.py::test_conf_main
  /scratch/alpine/.xsede.org/kfotso/software/anaconda/envs/ccc-gpu/lib/python3.10/runpy.py:126: RuntimeWarning: 'ccc.conf' found in sys.modules after import of package 'ccc', but prior to execution of 'ccc.conf
'; this may result in unpredictable behaviour
    warn(RuntimeWarning(msg))
tests/test_giant.py: 408 warnings
tests/test_plots.py: 8 warnings
  /scratch/alpine/.xsede.org/kfotso/software/anaconda/envs/ccc-gpu/lib/python3.10/site-packages/pandas/core/algorithms.py:517: DeprecationWarning: np.find_common_type is deprecated.  Please use `np.result_type`
 or `np.promote_types`.
  See https://numpy.org/devdocs/release/1.25.0-notes.html and the docs for more information.  (Deprecated NumPy 1.25)
    common = np.find_common_type(
tests/test_giant.py: 12 warnings
tests/test_utils.py: 2 warnings
  /scratch/alpine/.xsede.org/kfotso/software/anaconda/envs/ccc-gpu/lib/python3.10/site-packages/pandas/core/dtypes/cast.py:1846: DeprecationWarning: np.find_common_type is deprecated.  Please use `np.result_typ
e` or `np.promote_types`.
  See https://numpy.org/devdocs/release/1.25.0-notes.html and the docs for more information.  (Deprecated NumPy 1.25)
    return np.find_common_type(types, [])  # type: ignore[arg-type]
-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
207 passed, 444 warnings in 216.07s (0:03:36)