dbrademan/coonlab_compass_chtc repository overview

⁠Background

This Docker image can be used to search proteomics data on the Center for High Throughput Computing's infrastructure at UW-Madison using the OMSSA search algorithm.

⁠Example Run Command

docker run
      -v <<PATH_TO_USER_FILES>>:/home/omssa_processing/user_files
      --rm=true
      domssa_run_environment:ubuntu
      /home/omssa_processing/required/omssacl
      -fx /home/omssa_processing/user_files/<<SPECTRAL_DATA.txt>>
      -oc /home/omssa_processing/user_files/<<SEARCH_RESULTS.csv>>
      -d /home/omssa_processing/user_files/<<DATABASE_NAME>>
      -mux /home/omssa_processing/user_files/usermods.xml
      -logfile /home/omssa_processing/user_files/<<LOGFILE_NAME.log>>
       REST OF OMSSA SEARCH STRING