Mercurial > repos > kkonganti > hfp_nowayout
annotate 0.5.0/lib/help/kronaktimporttext.nf @ 0:97cd2f532efe
planemo upload
| author | kkonganti |
|---|---|
| date | Mon, 31 Mar 2025 14:50:40 -0400 |
| parents | |
| children |
| rev | line source |
|---|---|
| kkonganti@0 | 1 // Help text for ktImportText (krona) within CPIPES. |
| kkonganti@0 | 2 |
| kkonganti@0 | 3 def kronaktimporttextHelp(params) { |
| kkonganti@0 | 4 |
| kkonganti@0 | 5 Map tool = [:] |
| kkonganti@0 | 6 Map toolspecs = [:] |
| kkonganti@0 | 7 tool.text = [:] |
| kkonganti@0 | 8 tool.helpparams = [:] |
| kkonganti@0 | 9 |
| kkonganti@0 | 10 toolspecs = [ |
| kkonganti@0 | 11 'krona_ktIT_run': [ |
| kkonganti@0 | 12 clihelp: 'Run the ktImportText (ktIT) from krona. Default: ' + |
| kkonganti@0 | 13 (params.krona_ktIT_run ?: false), |
| kkonganti@0 | 14 cliflag: null, |
| kkonganti@0 | 15 clivalue: null |
| kkonganti@0 | 16 ], |
| kkonganti@0 | 17 'krona_ktIT_n': [ |
| kkonganti@0 | 18 clihelp: 'Name of the highest level. ' + |
| kkonganti@0 | 19 "Default: ${params.krona_ktIT_n}", |
| kkonganti@0 | 20 cliflag: '-n', |
| kkonganti@0 | 21 clivalue: (params.krona_ktIT_n ?: '') |
| kkonganti@0 | 22 ], |
| kkonganti@0 | 23 'krona_ktIT_q': [ |
| kkonganti@0 | 24 clihelp: 'Input file(s) do not have a field for quantity. ' + |
| kkonganti@0 | 25 "Default: ${params.krona_ktIT_q}", |
| kkonganti@0 | 26 cliflag: '-q', |
| kkonganti@0 | 27 clivalue: (params.krona_ktIT_q ? ' ' : '') |
| kkonganti@0 | 28 ], |
| kkonganti@0 | 29 'krona_ktIT_c': [ |
| kkonganti@0 | 30 clihelp: 'Combine data from each file, rather than creating separate datasets ' |
| kkonganti@0 | 31 + 'within the chart. ' + |
| kkonganti@0 | 32 "Default: ${params.krona_ktIT_c}", |
| kkonganti@0 | 33 cliflag: '-c', |
| kkonganti@0 | 34 clivalue: (params.krona_ktIT_c ? ' ' : '') |
| kkonganti@0 | 35 ] |
| kkonganti@0 | 36 ] |
| kkonganti@0 | 37 |
| kkonganti@0 | 38 toolspecs.each { |
| kkonganti@0 | 39 k, v -> tool.text['--' + k] = "${v.clihelp}" |
| kkonganti@0 | 40 tool.helpparams[k] = [ cliflag: "${v.cliflag}", clivalue: v.clivalue ] |
| kkonganti@0 | 41 } |
| kkonganti@0 | 42 |
| kkonganti@0 | 43 return tool |
| kkonganti@0 | 44 } |