=========================== multi_parallel_pick_otus.py =========================== Generate PBS scripts for submission to the OSC to run the QIIME parallel blast pick OTUs script on multiple input sequence data sets. .. code-block:: bash usage: osc_parallel_pick_otus.py [-h] -i INPUT_FNA [INPUT_FNA ...] [-t WALLTIME] [-n JOB_NAME] [-v] Required arguments ^^^^^^^^^^^^^^^^^^ .. cmdoption:: -i INPUT_FNA [INPUT_FNA ...], --input_fna INPUT_FNA [INPUT_FNA ...] The names of the sequence files that will be have PBS scripts generated to process them. The expected input is from the split_sequence_data.py script (e.g. 0.fna, 1.fna, ..., n.fna). .. cmdoption:: -t WALLTIME, --walltime WALLTIME The maximum running time to specify to the OSC queuing system for each script. .. cmdoption:: -n JOB_NAME, --job_name JOB_NAME A descriptive name for the job script that will appear when checking the job status. Max length is 15 characters, but '_#' will be appended to the name you provide to differentiate among all the jobs, so this parameter will be truncated if necessary to accommodate for the number of input files. .. cmdoption:: -h, --help Show the help message and exit .. cmdoption:: -v, --verbose This will cause the program to print the full path for each output file to the command line. This can be used for informational purposes or to pipe (|) to the PBS multi-submission script to automate job submission as soon as the scripts are created.