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docs/source/tutorial/diagnostic.rst

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+pyrpipe_diagnostic
+-------------------
+
+The pyrpipe_diagnostic command allows users to easily examine pyrpipe logs.
+It provides several options.
+
+1. report: This command can generate a summary or detailed report of the analysis.
+2. shell: This command creates a bash file containing all the commands executed via pyrpipe
+3. benchmark: This command can generate benchmarks to compare walltimes of the different commands in the pipeline.
+4. multiqc: This command uses the `MultiQC <https://multiqc.info/>`_  tool to generate a report using pyrpipe logs  and other logs geenrated by the pipeline.