Mercurial > repos > fubar > tool_factory_2
comparison toolfactory/rgToolFactory2.xml @ 112:5509dc4c1cf2 draft
Uploaded
| author | fubar |
|---|---|
| date | Sun, 29 Nov 2020 10:34:48 +0000 |
| parents | 223b78754735 |
| children | 6873c211b250 |
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| 111:223b78754735 | 112:5509dc4c1cf2 |
|---|---|
| 239 </param> | 239 </param> |
| 240 <param name="packages" type="text" value="" label="Conda dependencies as package name[:version, name:version...]. These will always be available when this tool executes" | 240 <param name="packages" type="text" value="" label="Conda dependencies as package name[:version, name:version...]. These will always be available when this tool executes" |
| 241 optional="false" help="Use :[ver] for specific version - 'bwa:0.17.0'. Default is latest. Will be used every time the tool is (re)run. Only Conda is currently supported" /> | 241 optional="false" help="Use :[ver] for specific version - 'bwa:0.17.0'. Default is latest. Will be used every time the tool is (re)run. Only Conda is currently supported" /> |
| 242 | 242 |
| 243 <conditional name="usescript"> | 243 <conditional name="usescript"> |
| 244 <param name="choosescript" type="select" display="radio" label="Supply a script to either a dependency (e.g. python/R/bash) or a system executable such as Bash" | 244 <param name="choosescript" type="select" display="radio" label="Supply a script for a dependency (e.g. python/R/bash) or a system executable such as Bash" |
| 245 help = "For script interpreters like Python or bash. Parameters and i/o specified below must match script's expectations - if you pass parameters, the script must deal with them"> | 245 help = "For script interpreters like Python or bash, parameters and i/o specified below must match script's expectations - if you pass parameters, the script must deal with them"> |
| 246 <option value="no">No script required for this tool - just pass parameters on the command line to the first dependency listed above</option> | 246 <option value="no">No script required for this tool - just pass parameters on the command line to the first dependency listed above</option> |
| 247 <option value="yes" selected="true">Yes, a script is ready to be pasted below</option> | 247 <option value="yes" selected="true">Yes, a script is ready to be pasted below</option> |
| 248 </param> | 248 </param> |
| 249 <when value="no"> | 249 <when value="no"> |
| 250 <param name="dynScript" type="hidden" value="" /> | 250 <param name="dynScript" type="hidden" value="" /> |
| 251 <param name="scriptrunner" type="hidden" value="" /> | 251 <param name="scriptrunner" type="hidden" value="" /> |
| 252 </when> | 252 </when> |
| 253 <when value="yes"> | 253 <when value="yes"> |
| 254 <param name="scriptrunner" type="text" value="" label="Interpreter for the script pasted below - eg bash or python. Can be one of the dependencies named above or a system executable" | 254 <param name="scriptrunner" type="text" value="" label="Interpreter for the script - eg bash or python. Can be one of the dependencies named above or a system executable" |
| 255 help="Scripts are interpreted by the executable named here. Use bash for bash scripts, or a conda dependency such as R or Python for those scripts"> | 255 help="Scripts are interpreted by the executable named here. Use bash for bash scripts, or a conda dependency such as R or Python for those scripts"> |
| 256 <sanitizer invalid_char=""> | 256 <sanitizer invalid_char=""> |
| 257 <valid initial="string.letters,string.digits"> | 257 <valid initial="string.letters,string.digits"> |
| 258 <add value="_"/> | 258 <add value="_"/> |
| 259 </valid> | 259 </valid> |
| 260 </sanitizer> | 260 </sanitizer> |
| 261 </param> | 261 </param> |
| 262 <param name="dynScript" type="text" area="True" value="" label="Script for executable below to interpret. It can be one of the Conda dependency names " | 262 <param name="dynScript" type="text" area="True" value="" label="Script for executable above to interpret. It can be one of the Conda dependency names " |
| 263 help="Script must handle all i/o and parameters as specified below using the parameters and passing method chosen below"> | 263 help="Script must handle all i/o and parameters as specified below using the parameters and passing method chosen below"> |
| 264 <sanitizer> | 264 <sanitizer> |
| 265 <valid initial="string.printable"> | 265 <valid initial="string.printable"> |
| 266 </valid> | 266 </valid> |
| 267 <mapping initial="none"/> | 267 <mapping initial="none"/> |