USAGE.txt

Usage:
  extract-gating-ml extract-global [-w=<sheet>] -i=<diva_xml>  -o=<gatingml_output_file> 
  extract-gating-ml extract-tube -s=<slabel> -t=<tlabel> -i=<diva_xml> -o=<gatingml_output_file>
  extract-gating-ml summary <diva_xml>
  extract-gating-ml summary-comp-channels <diva_xml>
  extract-gating-ml summary-global-gates [-w=<sheet>] <diva_xml>
  extract-gating-ml summary-tube-gates  -s=<slabel> -t=<tlabel> <diva_xml>
  extract-gating-ml summary-all-gates <diva_xml>
  extract-gating-ml compare-vs-global [-w=<sheet>] <diva_xml>
  extract-gating-ml compare-sheets [-w=<sheet>] <diva_xml>



Options:
  -h --help                 show this help text
  -i --input_diva_xml FILE  input DIVA XML file
  -o --output_file FILE     output GatingML 2.0 file
  -s --specimen LABEL       specimen label in DIVA XML
  -t --tube LABEL           tube label in DIVA XML
  -w --worksheet SHEET      global worksheet to use [default: Global Sheet1]

Examples:
  extract-gating-ml extract-global --input_diva_xml diva.xml --output_file gates.gatingml # Extract GatingML gates from DIVA XML global worksheet


Commands:
  extract-global         Extract the gates and compensation matrix from the global worksheet section
  extract-tube           Extract the gates and compensation matrix for a specific specimen and tube combination  
  summary                For the global worksheet and all specimen/tube combinations show the number of gates and compensation parameters
  summary-comp-channels  For the global worksheet and all specimen/tube combinations show a list of the compensation parameters
  summary-global-gates   For the global worksheet, show the gate hierarchy and some short information about the gates
  summary-tube-gates     For a specific specimen and tube combination, show the gate hierarchy and some short information about the gates
  summary-all-gates      For the global worksheet and all specimen/tube combinations, show the gate hierarchy and some short information about the gates
  compare-vs-global      Compare gates and compensation matrix for the specimen/tube combinations versus the global worksheet
  compare-sheets         Compare gates and compensation matrix for the global worksheets versus the first sheet