What's Changed
This update adds stability for singularity usage, especially with newer nextflow versions where $baseDir might not work. It also hotfixes an issue with the python recursion depth when combining Roary results and ILPs. The user can now increase the recursion depth; it is not an optimal solution but a hotfix. Also, minor problems with wrong paths in the HTML output were solved. Further, some problems with the new "skip prokka step" feature were solved: when the feature is used their is no renaming of FASTA files happening and thus the _RENAMED suffix does not exist and subsequently no need to remove it in later steps such as the MSA generation.
Closed issues:
Full Changelog: 1.1.0...1.1.1
Contributors
hoelzer