Old (bugged) version of Smoothxg breaks output paths

[msgr0]

Description of the bug

Problem:
Running nf-core/pangenome on a multi sequence fasta file will result in the output pangenome to miss the last
PATH if and only if it is composed by a single fragment.

Explanation:
nf-core/pangenome in the dev branch and in the latest 1.1.2 release tag is using smoothxg ver 0.7.2.

This version of smoothxg suffers from this bug pangenome/pggb/#377, fixed in March 2024 (pangenome/smoothxg#206) and released in smoothxg ver. 0.8.0.

Updating the tool for nf-core/pangenome should result in a quick fix of this problem.

Thanks!

System information

• Latest nextlfow version
• Container engines: (podman, conda)
• OS: AlmaLinux
• nf-core/pangenome versions (dev, 1.1.2)

[subwaystation]

The latest smoothxg on https://bioconda.github.io/recipes/smoothxg/README.html is 0.8.0 so this should be straightforward to integrate. If nothing goes brr, this will land in dev this week.

[heuermh]

smoothxg was updated to 0.8.0 in modules, now we need to update it here.

I will create a pull request once the merge in nf-core/modules completes.

[subwaystation]

Done @msgr0 #216.
This should already work out of the box, else re-open here.