Mercurial > repos > jjohnson > qiime
view poller.xml @ 0:e5c3175506b7 default tip
Initial tool configs for qiime, most need work.
author | Jim Johnson <jj@umn.edu> |
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date | Sun, 17 Jul 2011 10:30:11 -0500 |
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<tool id="poller" name="poller" version="1.2.0"> <description>Poller for parallel QIIME scripts.</description> <requirements> <requirement type="binary">poller.py</requirement> </requirements> <command interpreter="python"> qiime_wrapper.py --galaxy_tmpdir='$__new_file_path__' poller.py --check_run_complete_file=$check_run_complete_file --check_run_complete_f=$check_run_complete_f --process_run_results_f=$process_run_results_f --process_run_results_file=$process_run_results_file --clean_up_f=$clean_up_f --clean_up_file=$clean_up_file --time_to_sleep=$time_to_sleep </command> <inputs> <param name="check_run_complete_file" type="data" format="txt" label="check_run_complete_file" help="path to file containing a list of files that must exist to declare a run complete [REQUIRED]"/> <param name="check_run_complete_f" type="text" value="qiime.parallel.poller.basic_check_run_complete_f" label="check_run_complete_f" help="function which returns True when run is completed [default: qiime.parallel.poller.basic_check_run_complete_f]"/> <param name="process_run_results_f" type="text" value="qiime.parallel.poller.basic_process_run_results_f" label="process_run_results_f" help="function to be called when runs complete [default: qiime.parallel.poller.basic_process_run_results_f]"/> <param name="process_run_results_file" type="data" format="tabular" label="process_run_results_file" help="path to file containing a map of tmp filepaths which should be written to final output filepaths [default: ('NO', 'DEFAULT')]"/> <param name="clean_up_f" type="text" value="qiime.parallel.poller.basic_clean_up_f" label="clean_up_f" help="function called after processing result [default: qiime.parallel.poller.basic_clean_up_f]"/> <param name="clean_up_file" type="data" format="txt" label="clean_up_file" help="List of files and directories to remove after run [default: ('NO', 'DEFAULT')]"/> <param name="time_to_sleep" type="integer" value="60" label="time_to_sleep" help="time to wait between calls to status_callback_f (in seconds) [default: 60]"/> </inputs> <outputs> </outputs> <tests> </tests> <help> </help> </tool>