Matteopaluh

Hello! I believe the error happens for two reasons: 1) due to the fact that a file named "**genome**.fna" requires a "**genome**.emapper.annotations" in the eggnog directory; 2) because the -O...

> Hello I got this error, what might be the possible issues in here? > > `FileNotFoundError: [Errno 2] No such file or directory: 'KEGG_MODULES//kk_files/'` Hello, I assume you executed...

> actually i create a singularity images for this folder seems to be there in that singularity. So I have no idea above how this tools works. I guess I'll...

@shibormi I'm not totally familiar with singularity, as I mentioned earlier, nonetheless I'm trying to identify potential issues. Similarly to the main issue that was raised here (by user: timeresistance1996)...

Hello both of you, Indeed KEMET was conceived and structured in 3 different scripts, but at the time of first manuscript submission to a journal, one reviewer suggested to bundle...

Hello! To properly reply I'd need a little more informations, such as: - which specific command line you used? - what's the format of your input file(s)? i.e. did you...

Thanks for the extra details! I've only tested the script from input obtained with gtdb-tk command line (so a difference could arise from that aspect). Same goes for the gtdb-to-ncbi...

> Hi Matteo, > Thank you! The file extensions and names match in the genomes.instruction file and the output file from GTDB. I downloaded the metadata files for r207 and...

Thanks for the suggestion! That was an early thought of mine, to make it even easier to install KEMET, but I never tried before and didn't wantt to mess up...

I actually tried a few different setups, but had an hard time packaging both the python code and the external dependencies (mafft, hmmer, prodigal, diamond) which I'm now accessing via...