justincbagley/clean_raxml_gist.md

Created April 22, 2020 19:22

Star () You must be signed in to star a gist
Fork () You must be signed in to fork a gist

Learn more about clone URLs
Clone this repository at <script src="https://gist.github.com/justincbagley/39bd7a0917d4b89b32265197557b291f.js"></script>
Save justincbagley/39bd7a0917d4b89b32265197557b291f to your computer and use it in GitHub Desktop.

clean_raxml function for cleaning RAxML run directories

Raw

For those interested in running RAxML for phylogenetic inference using maximum-likelihood, here is a little function for cleaning up (within a RAxML run directory) after a failed RAxML run. Just add the following function to your ~/.bash_profile (on Mac) or ~/.bashrc (on Linux supercomputer) and do source ~/.bash_profile (or simliar) to have it on hand from the cli.

## CLEAN RAXML RUN DIR (TO CLEAN UP AFTER FAILED RUNS, BEFORE RESUBMITTING TO QUEUE)

clean_raxml () {
        rm ./*.txt; rm ./*.reduced; rm ./RAxML_info* ;
}