Mercurial > repos > mingchen0919 > one_command_liners

annotate tool_template_render.R @ 3:6da0541944de draft

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initial tool
author mingchen0919
date Thu, 22 Feb 2018 23:49:26 -0500
parents f1f549e6d0bc
children
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1 zz = file("warnings_and_errors.txt")
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2 sink(zz)
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3 sink(zz, type = "message")
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5 ## get command line inputs into R
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6 short_flags = extract_short_flags(xml_file_name = 'extract_fields.xml')
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7 opt = getopt_specification_matrix(short_flags)
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8 opt
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9 rmarkdown::render('tool_template.Rmd', output_file = opt$report_html)
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11 sink()