Amit Lavon

Hello, adding potential reviewers from the [spreadsheet](https://docs.google.com/spreadsheets/d/1PAPRJ63yq9aPC1COLjaQp8mHmEq3rZUzwUYxTulyu78/) in the meantime. The following users mentioned Go and biology. I hope this helps. - kortschak (author of biogo, relevant to this paper)...

Hi @kyleniemeyer, thanks for the update. Happy to provide any clarifications if needed.

Ok, thank you for taking the time to consider my submission.

Thanks @TomasaSbaffi, your response helped me solve the issue. Reinstalling h5py with the version you mentioned was enough in my case. @jessieren perhaps the instructions for creating the conda env...

Hi Torsten, Sorry too for the slow response, we're swamped with hCoV work as well. So I'll send you individual PRs. You can take a look at your convenience, no...

Hi, I am having this issue as well on a fresh mamba+pharokka (1.7.1) install. ``` pharokka.py -i vir.fa -o vir.prk -d ~/data/pharokka ``` Same error. Adding `--hmm_only` or `--fast` did...

Thanks for the quick response! Here is the input file (111K unzipped): [vir.fa.gz](https://github.com/gbouras13/pharokka/files/15413716/vir.fa.gz)

Thanks for looking into this! I removed the `#` signs from the names and now it runs :)

Thank you, @SMUZhanLi! I got the DB you linked to and I am still getting empty levels for Bacteria, Archaea and Viruses. I tried with both kraken2 v2.1.3 and with...

I edited the report file manually and added a 'D' level to Bacteria, Archaea, Viruses and Eukaryotes. Now I am getting this: ``` >> Checking for Valid Options... >> Running...