Evan Staton

Hi, It looks like you have some duplicate IDs in your genome file perhaps. We can check that with the commands below: grep ">" genome.fas | sed 's/>//' | sort...

Hi Jenny, It appears there is something odd with the IDs or sequences, and I thought it might be caused by having duplicate IDs based on the message. Though, that...

Just FYI, I can recreate the error. This is something in the GenomeTools library and not Tephra, so it's not immediately clear how to resolve it. I will likely have...

Thanks for the message. I have not tried with singularity yet, but I will take a look this week. From your output it looks to be a locale issue and...

Okay, I can recreate the first issue and resolve it. In singularity, you'll need to run tephra as such: LANG=C tephra or export LANG=C tephra I'm not sure if that...

I can confirm that the above ENV setting alone will not fix the second issue. Will have to explore this further.

Thank you for the patience. I could not resolve the issue with trying to load certain compiled C libraries in the Singularity environment that were compiled with the Docker image....

Okay, here are the singularity commands: singularity pull library://sestaton/default/tephra LC_ALL=C singularity run tephra_latest.sif You will need to bind your data directory with all your files. So, assuming you have a...

Can you show me the output of the commands you ran before this? Specifically, the install commands listed in the [INSTALL](https://github.com/sestaton/tephra/blob/master/INSTALL.md) file. I believe that will explain the issue. Thanks,...

I think the command was issued with a typo. That is one issue. Try this: echo "n" | cpanm -n Data::Stag DB_File Bio::Root::Version Bio::SearchIO::blastxml Bio::SearchIO::hmmer