search

linnabrown / run_dbcan

Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.
http://bcb.unl.edu/dbCAN2
GNU General Public License v3.0
138 stars 40 forks source link

error when using --out_pre argument #84

Closed szimmerman92 closed 2 years ago

szimmerman92 commented 2 years ago

Hi,

I am using version 3 of dbcan. When I set the --out_pre argument to EscheriaColiK12MG1655 using the sample dataset I get the following error.

Failed to open sequence file run_dbcan/output_EscheriaColiK12MG1655/EscheriaColiK12MG1655/uniInput for reading

However, if I don't use the --out_pre argument the tool works perfectly.

Thank you very much for making dbcan! It is very helpful.

Best, Sam

linnabrown commented 2 years ago

Thank you for indicating this bug. I am now fixing it.

szimmerman92 commented 2 years ago

Hi,

Thank you very much. I saw there were some other comments left before this most recent one. My command was

run_dbcan EscheriaColiK12MG1655.fna prok --out_dir output_EscheriaColiK12MG1655 --out_pre EscheriaColiK12MG1655

Sorry if there was any confusion. This is not an immediate issue so if you are on a holiday no need to fix right away.

linnabrown commented 2 years ago

pip install dbcan==3.0.2