Hi Greg,
I made a tool for Galaxy which produces a normal XML output file and next to that it also produces a HTML report with some quick summarized details for the user.
I could solve this by using 2 output files, but I don’t want to keep the history as concise as possible. To I found the option to use “display application”. I defined my
as below:
<display
id="sedmatreport"
version="1.0.0"
name="Show ">
<link
id="sedmatreport"
name="SedMat_report">
<url
target_frame="galaxy_main">${BASE_URL}/static/prims/reports/${dataset.id}/sedmat_report.html</url>
</link>
</display>
So in my tool config xml I have the following respective configuration:
<command
interpreter=" java -jar ">
Mytool.jar
...some parameters....
-outReport
/galaxy-dist/static/prims/reports/$outputData.dataset.id/sedmat_report.html
#end if
</command>
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This works fine, but I would like to avoid using the
static directory. Do you know if there is an alternative web directory configured by default in the Galaxy web-server?
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I also want to avoid the
/galaxy-dist/ part in the tool configuration since the Galaxy home directory can vary. Is there a variable which I can use for this?
Thanks and regards,
Pieter Lukasse
Wageningen UR, Plant Research International
Departments of Bioscience and Bioinformatics
Wageningen Campus, Building 107, Droevendaalsesteeg 1, 6708 PB,
Wageningen, the Netherlands
+31-317480891; skype: pieter.lukasse.wur