Linda Fenske

UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte

2

Hi, I'm trying to run checkm in the latest version, but it doesn't work. The commands are the same as I used before, however I get with: ` checkm lineage_wf...

Use Pyrodigal as Prodigal alternative

2

Hi, Since `GTDBtk` is using `Prodigal`, I was wondering if maybe you have thought about switching to [Pyrodigal](https://github.com/althonos/pyrodigal)? In case you haven't came across the Prodigal bug yet: A typo...

[bug] bactopia tool phispy does not find samples

11

Hi Robert, I try to use `phispy` for my data, but it stops with: ``` Found 0 samples to process 518 samples were excluded due to missing files. ``` This...

[question] Polishing steps.

3

Hi Robert, I wonder if `Bactopia` involves specific polishing steps? I mean to have seen some things in the complete usage, but no direct listing. The background is that @oschwengers...

Error: HTTP Error 429: Too Many Requests

9

Hi, when I try to test your tool I run in the following error: ``` warnings.warn( Downloading Schemes using 40 threads: 0%| | 0/153 [00:00