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>
è 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?
è
è 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 http://www.pri.wur.nlhttp://www.pri.wur.nl/