Plate Map Search Error in Cytosnake Workflow

[axiomcura]

Problem Description:
An error consistently occurs when attempting to use barcodes to find the corresponding plate map in the Cytosnake workflow. The error is as follows:

Traceback (most recent call last):
  File "/home/erikserrano/Benchmarks/cytosnake-cp-process-singlecell-CFReT-data/.snakemake/scripts/tmpgqcod7t7.annotate.py", line 142, in <module>
    annotate_cells(
  File "/home/erikserrano/Benchmarks/cytosnake-cp-process-singlecell-CFReT-data/.snakemake/scripts/tmpgqcod7t7.annotate.py", line 77, in annotate_cells
    platemap = barcode_platemap_df.query(
IndexError: index 0 is out of bounds for axis 0 with size 0

Issues Identified:

1. Workflow Interruption:

   • The error leads to a complete halt in the workflow, causing disruption and hindering progress.

2. Fragility with Names:

   • The current implementation is sensitive to naming variations, making it fragile and prone to errors.