Léonard Dubois

Hello, it seems that the value passed to the ` --o_covplot` argument makes the matplotlib function crashing as it contains a point and no extension. Try the same line but...

Hello, thanks for using PanPhlAn and reporting this issue, it helps improving the software. The problem here seems to be in reading the samtools mpileup results that are by default...

Hello, I updated PanPhlAn to version 3.1 and fixed the bioconda recipe that shoul solve problem of boztie2 and samtools version

Hi, Indeed the bowtie2 installation seem to have some issue. It seems that a similar issue occurred here: https://forum.biobakery.org/t/unknown-bowtie2-errors/1871 Tell me if you manage to fix it

Hello Nick ! The wiki page with `g[0-9]{5}` aims to give a example of what the output looks like. Sorry if it's confusing. Both PanPhlAn 3 and HUMAnN 3 should...

Yes both used ChocoPhlAn (our internal pipeline) based on UniRef 2019-01 That is strange indeed that a low percentage of PanPhlAn UniRef90 maps, I'll check that whenever I find the...

Hello Nick, sorry, I've been busy with other projects in the past month and I haven't check that yet. I'll let you know when I'll have some news.

Hi, thanks for highlighting this issue with extensive details. I pushed a correction, it should work now. Let me know if you encounter any other problem.

Hello, thanks again for all the issues your raise, it helps us improving PanPhlAn. This might come from the version of the seaborn package that you are using. Which one...

Hi, I tried it in a conda environment with seaborn version 0.9 instead of 0.10, but it doesn't print any error. I assume it might come from matplotlib (I'm using...