changeset 9:e4e097a41064 draft

Uploaded

--- a/rgToolFactory.xml	Wed Mar 19 21:10:03 2014 -0400
+++ b/rgToolFactory.xml	Wed Mar 19 21:42:08 2014 -0400
@@ -1,4 +1,4 @@
-<tool id="rgTF" name="Tool Factory" version="0.10">
+<tool id="rgTF" name="Tool Factory" version="1.10">
   <description>Makes scripts into tools</description>
    <requirements>
       <requirement type="package" version="9.10">ghostscript</requirement>
@@ -62,17 +62,15 @@
     </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="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" 
+    <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 only want an HTML output file</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" help="You may need to edit the xml to extend this list">
+    <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>
@@ -197,6 +195,7 @@
  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()