Thank you again,
In fact the problem come for our server, that use charliecloud image (convert from docker) that needed to add a specific line to activate the conda environment in the image.
Ou...
Thanks for your answer, here is my complete command:
`sqanti3_qc.py corrected_gtf.gtf Mus_musculus.GRCm38.99.gtf Mus_musculus.GRCm38.dna.primary_assembly.fa -t 12 -o stringtie2.sqanti3_qc ...
### Is there an existing issue for this?
- [X] I have searched the existing issues
### Have you loaded the SQANTI3.env conda environment?
- [X] I have loaded the SQANTI3.env conda environment
#...
Thank you for your answer,
I rewrite my code only in shiny core and its working. The problem can come from our installation on the server or from the python version used ( 3.10) I will investigate....