comparison rgToolFactory.xml @ 9:e4e097a41064 draft

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8:78c04d9fe621

<tool id="rgTF" name="Tool Factory" version="0.10">
  <description>Makes scripts into tools</description>
   <requirements>
      <requirement type="package" version="9.10">ghostscript</requirement>
      <requirement type="package" version="1.3.18">graphicsmagick</requirement>
  </requirements>

        <when value = "">
        </when>
    </conditional> 
    <param name="make_HTML" type="select" label="Create an HTML report with links to all output files and thumbnail links to PDF images" size="60"
         help="Recommended for presenting complex outputs in an accessible manner. Turn off for simple tools so they just create one output">
        <option value="yes">Yes, arrange all outputs in an HTML output</option>
        <option value="" selected="true">No, no HTML output file thanks</option>
    </param>


    <param name="make_TAB" type="select" label="Create a new (default tabular) history output" 
         help="This is useful if your script creates a single new tabular file you want to appear in the history after the tool executes">
        <option value="yes" selected="true">My script writes to a new history output</option>
        <option value="">I only want an HTML output file</option>
    </param>
    <param name="out_format" type="select" label="Galaxy datatype for your tool's output file" help="You may need to edit the xml to extend this list">
    <option value="tabular" selected="true">Tabular</option>
    <option value="interval">Interval</option>
    <option value="gz">gz</option>
    <option value="text">text</option>
    </param>

 # note this script takes NO input or output because it generates random data
 for (i in 1:10) {
    foo = runif(100)
    bar = rnorm(100)
    pdf(paste('yet',i,"anotherplot.pdf",sep='_'))
    plot(foo,bar,main=paste("Foo by Bar plot #",i),col="maroon", pch=3,cex=0.6)
    dev.off()
    foo = data.frame(a=runif(100),b=runif(100),c=runif(100),d=runif(100),e=runif(100),f=runif(100))
    bar = as.matrix(foo)

9:e4e097a41064

<tool id="rgTF" name="Tool Factory" version="1.10">
  <description>Makes scripts into tools</description>
   <requirements>
      <requirement type="package" version="9.10">ghostscript</requirement>
      <requirement type="package" version="1.3.18">graphicsmagick</requirement>
  </requirements>

        <when value = "">
        </when>
    </conditional> 
    <param name="make_HTML" type="select" label="Create an HTML report with links to all output files and thumbnail links to PDF images" size="60"
         help="Recommended for presenting complex outputs in an accessible manner. Turn off for simple tools so they just create one output">
        <option value="yes">Yes, arrange all outputs produced by my script as an HTML output</option>
        <option value="" selected="true">No, no HTML output file thanks</option>
    </param>
    <param name="make_TAB" type="select" label="Create a new (default tabular) history output with or without an HTML file specified above" 
         help="This is useful if your script creates a single new tabular file you want to appear in the history after the tool executes">
        <option value="yes" selected="true">My script writes to a new history output</option>
        <option value="">I do not want a new history output file</option>
    </param>
    <param name="out_format" type="select" label="Galaxy datatype for your tool's output file if any" help="You may need to edit the xml to extend this list">
    <option value="tabular" selected="true">Tabular</option>
    <option value="interval">Interval</option>
    <option value="gz">gz</option>
    <option value="text">text</option>
    </param>

 # note this script takes NO input or output because it generates random data
 for (i in 1:10) {
    foo = runif(100)
    bar = rnorm(100)
    bar = foo + 0.2*bar
    pdf(paste('yet',i,"anotherplot.pdf",sep='_'))
    plot(foo,bar,main=paste("Foo by Bar plot #",i),col="maroon", pch=3,cex=0.6)
    dev.off()
    foo = data.frame(a=runif(100),b=runif(100),c=runif(100),d=runif(100),e=runif(100),f=runif(100))
    bar = as.matrix(foo)