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1 // Help text for ktImportText (krona) within CPIPES.
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2
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3 def kronaktimporttextHelp(params) {
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4
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5 Map tool = [:]
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6 Map toolspecs = [:]
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7 tool.text = [:]
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8 tool.helpparams = [:]
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9
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10 toolspecs = [
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11 'krona_ktIT_run': [
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12 clihelp: 'Run the ktImportText (ktIT) from krona. Default: ' +
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13 (params.krona_ktIT_run ?: false),
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14 cliflag: null,
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15 clivalue: null
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16 ],
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17 'krona_ktIT_n': [
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18 clihelp: 'Name of the highest level. ' +
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19 "Default: ${params.krona_ktIT_n}",
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20 cliflag: '-n',
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21 clivalue: (params.krona_ktIT_n ?: '')
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22 ],
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23 'krona_ktIT_q': [
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24 clihelp: 'Input file(s) do not have a field for quantity. ' +
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25 "Default: ${params.krona_ktIT_q}",
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26 cliflag: '-q',
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27 clivalue: (params.krona_ktIT_q ? ' ' : '')
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28 ],
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29 'krona_ktIT_c': [
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30 clihelp: 'Combine data from each file, rather than creating separate datasets '
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31 + 'within the chart. ' +
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32 "Default: ${params.krona_ktIT_c}",
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33 cliflag: '-c',
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34 clivalue: (params.krona_ktIT_c ? ' ' : '')
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35 ]
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36 ]
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37
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38 toolspecs.each {
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39 k, v -> tool.text['--' + k] = "${v.clihelp}"
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40 tool.helpparams[k] = [ cliflag: "${v.cliflag}", clivalue: v.clivalue ]
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41 }
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42
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43 return tool
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44 } |
