FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas.

[Michael-Sun]

babs-status --project-root $PWD floods my screen with FutureWarnings:

(/dartfs-hpc/rc/home/j/f003z4j/miniconda3/envs/physio/babs) [f003z4j@n09 my_BABS_project]$ babs-status --project-root $PWD
Did not request resubmit based on job states (no --resubmit).
/dartfs-hpc/rc/home/j/f003z4j/miniconda3/envs/physio/babs/lib/python3.9/site-packages/babs/babs.py:1182: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value 'I'm in /dartfs-hpc/rc/home/j/f003z4j/babs_demo2/my_BABS_project/analysis using /dartfs-hpc/rc/home/j/f003z4j/miniconda3/bin/python' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
df_job_updated.at[i_job, "last_line_stdout_file"] =
/dartfs-hpc/rc/home/j/f003z4j/miniconda3/envs/physio/babs/lib/python3.9/site-packages/babs/babs.py:1261: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value 'running' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
df_job_updated.at[i_job, "job_state_category"] = state_category
/dartfs-hpc/rc/home/j/f003z4j/miniconda3/envs/physio/babs/lib/python3.9/site-packages/babs/babs.py:1262: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value 'r' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
df_job_updated.at[i_job, "job_state_code"] = state_code
/dartfs-hpc/rc/home/j/f003z4j/miniconda3/envs/physio/babs/lib/python3.9/site-packages/babs/babs.py:1274: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '0:19' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
df_job_updated.at[i_job, "duration"] = duration

Job status:
There are in total of 6 jobs to complete.
1 job(s) have been submitted; 5 job(s) haven't been submitted.
Among submitted jobs,
0 job(s) are successfully finished;
0 job(s) are pending;
1 job(s) are running;
0 job(s) are failed.

All log files are located in folder: /dartfs-hpc/rc/home/j/f003z4j/babs_demo2/my_BABS_project/analysis/logs

[zhao-cy]

Hi Michael! Could you please let me know which version of pandas package you're using?

[zhao-cy]

Shreya from Alexander-Bloch's lab also has similar issue. Her pandas version is: 2.1.2.

[zhao-cy]

TODO: set the upper boundary of pandas package version in the settings when installing.

[asmacdo]

As @yarikoptic mentioned in my duplicate issue, #168 (comment)

we probably ought not to set a max version of pandas since that will eventually limit babs compatibility.

Instead, I think we should leave the pandas requirement as-is, with the ambition to refactor for the new pandas. If pandas creates a new release that drops that functionality and breaks babs, then we can add then max version as a stop-gap.