search

BioinformaticsToolsmith / MeShClust

MeShClust: an intelligent tool for clustering DNA sequences
https://doi.org/10.1093/nar/gky315
37 stars 12 forks source link

Command-line input #13

Closed nvergauwe closed 3 years ago

nvergauwe commented 3 years ago

I'm a Mac user (Big Sur) and compiled MeshClust via the fork created by Arpad. However, I’m now having problems invoking the meshclust executable from the command line. After I typed in the following command, './bin/meshclust Amalgaviridae.fa --id 0.90 --kmer 3 --delta 5 --output output.clstr --iterations 20 --align --sample 3000 --pivot 40 --threads TMAX’, I only get the text defined in the 'void usage(std::string progname)’ function in the ‘runner.cpp’ file. Any idea on what I could have done wrong?

nvergauwe commented 3 years ago

Probably straightforward for (experienced) users, but before running the executable, I had to add the Bin folder location (where the executable is) to the path list of the command line interface: export PATH=$(pwd)/bin/:$PATH