When running the evaluate-contigs action in an environment with the most recent version of QUAST installed (5.2.0), it is impossible to generate the QC visualization due to the following error:
ValueError: invalid literal for int() with base 10: 'START_A'.
This seems to be caused by https://github.com/ablab/quast/issues/230 (and fixed by https://github.com/ablab/quast/pull/244). Unfortunately, the previous conda-installable version of QUAST (5.0.2) is not compatible with our environment (it needs Python<3.7) so until a new, fixed version is released, the only solution would be to pip install QUAST directly.
When running the
evaluate-contigsaction in an environment with the most recent version of QUAST installed (5.2.0), it is impossible to generate the QC visualization due to the following error:ValueError: invalid literal for int() with base 10: 'START_A'.This seems to be caused by https://github.com/ablab/quast/issues/230 (and fixed by https://github.com/ablab/quast/pull/244). Unfortunately, the previous conda-installable version of QUAST (5.0.2) is not compatible with our environment (it needs Python<3.7) so until a new, fixed version is released, the only solution would be to
pip installQUAST directly.