[bug]: node masks absent for third node onwards in each grain

[phooda1]

Checklist

• Run using the main branch to check if the issue persists. Instructions on how to do this can be found here.
• Find the offending file in the output. If processing halts, re-run analysis with topostats --core 1 process.
• Describe the bug.
• Include the configuration file.
• Copy of the log-file from running with topostats --log-level debug <command>.
• The exact command that failed. This is what you typed at the command line, including any options.
• TopoStats version, this is reported by topostats --version
• Operating System and Python Version

Describe the bug

I basically cannot find the node masks for any node past node_0 and node_1. In the log I can't see node stats failed either. Also In the node masks pngs I can see, it is being saved as xxxx.png.png

Copy of the log-file from running with topostats --log-level debug <command>

v4-2026-08-04-20-49-24.log

v4-2026-08-04-20-49-04.log

Include the configuration file

RNA_config.yaml

To Reproduce

No response

TopoStats Version

2.3.2rc2

Python Version

3.11

Operating System

MacOS M1/M2 (post-2021)

Python Packages

No response