Hi Greg, Thanks for your answer. Would be great to get the tool to preview correctly but is not a big deal.
I'm having a few more problems. I'm getting this error from time to time when I do "hg push" or even when I delete all files from the toolshed and upload new ones: "Version information for the tools included in the cummerbund repository is missing. Reset all of this repository's metadata in the tool shed, then set the installed tool versions from the installed repository's Repository Actions menu." Doing a "Reset metadata" in the toolshed doesn't solve this issue. I can't find how to do "then set the installed tool versions from the installed repository's Repository Actions menu". I'm also having problem including a datatype with the tool. One of the outputs of the tool is a sqlite database. I have this datatypes_conf.xml: <?xml version="1.0"?> <datatypes> <registration> <datatype extension="sqlite" type="galaxy.datatypes.binary:Binary" mimetype="application/octet-stream" subclass="True" display_in_upload="true"/> </registration> </datatypes> Still sqlite doesn't appear as an option when I try to upload a file to Galaxy. The new datatype does appear if I choose the edit a dataset attributes. Lastly, when I try to upload a sqlite database I get this error: "An error occurred running this job: The uploaded binary file contains inappropriate content" $ file -i cummerbund.sqlite cummerbund.sqlite: application/octet-stream; charset=binary I was hoping by including a sqlite datatype this would be resolved. Thanks, Carlos On Tue, Feb 14, 2012 at 3:10 PM, Greg Von Kuster <g...@bx.psu.edu> wrote: > Hi Carlos, > > Not every tool form parameter will properly display when previewing the tool > in the tool shed because the tool shed doesn't have access to some Galaxy > components (e.g., a Galaxy history ) that are required for some tool > parameter types. When I get a chance, I'll take a closer look, but if your > tool is functional when installed from the tool shed to a local Galaxy > instance, all should be ok. > > Thanks for your contribution! > > Greg Von Kuster > > On Feb 14, 2012, at 1:49 PM, Carlos Borroto wrote: > >> Hi, >> >> I'm currently developing my first Galaxy tool. I'm working on a >> wrapper for R's library cummeRbund. I got to the point where the >> tool although incomplete on functionality, I think is ready to be >> uploaded to the Toolshed. I was able to do so. I also made sure I >> could then install it on my local instance using the toolshed >> repository. >> >> Everything is working as expected, except, the tool preview is not >> working correctly. There is no error, but the inputs, most of them >> conditional inputs, aren't being displayed correctly. This is the >> direct link to the tool in the test toolshed: >> http://testtoolshed.g2.bx.psu.edu/repository/manage_repository?operation=view_or_manage_repository&id=575665a9f01c6d41 >> >> http://compbio.mit.edu/cummeRbund/ >> >> Kind regards, >> Carlos >> ___________________________________________________________ >> Please keep all replies on the list by using "reply all" >> in your mail client. To manage your subscriptions to this >> and other Galaxy lists, please use the interface at: >> >> http://lists.bx.psu.edu/ > ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/