Rafael Mamede

Hello @davidmaimoun, Thank you for your interest in chewBBACA. I confirm that duplicated inputs lead to issues after gene prediction with Prodigal. Different input files cannot share the same unique...

Greetings @bharat1912 , If you have already created a schema and want to perform AlleleCall, you should provide the path to the schema's directory to the `-g` parameter. Alternatively, you...

Hello @bala-ruokavirasto, Thank you for reporting this issue. We have found the cause of this bug and will include a bugfix in the next PR. The next PR will include...

Hello @tanzhizhou, Thank you for your interest in chewBBACA. A fix for this issue was added to the main branch with the last PR. The PR adds a lot of...

Hello @eam12, Thank you for your interest in chewBBACA. We have never encountered that error while testing/running chewBBACA. It is raised by the [`shutil`](https://docs.python.org/3/library/shutil.html) package and I do not think...

Hello @saramonzon, Thank you for reporting this issue. Please check the permissions of the files inside that folder. It is possible that some files are marked as read-only and that...

Hello @AleSR13, Thank you for your interest in chewBBACA and apologies for such a delayed response. External schemas such as the ones you have used might not follow the same...

Greetings @domenico-simone, Thank you for your interest in chewBBACA and sorry for the delayed response. It does seem like the process is failing because it was not possible to generate...

Hello @KHajji, Thank you for bringing this to our attention. We've updated the training file for _L. monocytogenes_. It is now based on the RefSeq reference genome [GCF_000196035.1](https://www.ncbi.nlm.nih.gov/assembly/GCF_000196035.1/). We've also...

Hello @fedex88, The UniprotFinder process needs internet access to download the reference proteomes for the taxon or taxa passed to the `--taxa` parameter. It downloads the README file at `ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/reference_proteomes/`...