Support for Gzip fasta files

Question

Support for Gzip fasta files

fgvieira opened this issue 7 months ago · 2 comments

fgvieira commented 7 months ago

Would it be possible for skder to support gzip input files?

PS - Also allow for .fas extensions.

Answer 1 · 2024-03-17T19:37:20.000Z

Hi, sorry again for the delayed response here! I will make sure to add these features for the next release.

Thank you for the suggestions!
Rauf

Answer 2 · 2024-03-29T15:29:49.000Z

Hi @fgvieira , sorry again for the delay here!

skDER v1.0.9 should now allow for .fas suffices and usage of compressed genomes. Also, I just released another version (v1.0.10; to overcome ncbi connection issues if you are using the GTDB auto-download feature) which should be available via bioconda later today.

Just let me know if you have any additional suggestions or experience issues.

Rauf