Re: [galaxy-dev] Tool error occurred when adding my tool to galaxy

2012-12-31 Thread James Boocock
Hi Tan, If you go into your tool xml file I think you will find a tag error the traceback. Something like type=select you may have put thype a simple typo. Happy Holidays James Boocock On Sat, 2012-12-29 at 16:36 +0800, Tan Jun wrote: Hi, all I'm new here. These days I'm trying to

Re: [galaxy-dev] Tool error occurred when adding my tool to galaxy

2012-12-31 Thread James Boocock
Hi Tan, If you go into your tool xml file I think you will find a tag error the traceback. Something like type=select you may have put thype a simple typo. Happy Holidays James Boocock On Sat, 2012-12-29 at 16:36 +0800, Tan Jun wrote: Hi, all I'm new here. These days I'm trying to

[galaxy-dev] Tool error occurred when adding my tool to galaxy

2012-12-29 Thread Tan Jun
Hi, all I'm new here. These days I'm trying to add a tool in Galaxy, as showed in screencast. I did the same thing with that in screencast. But an error occurred. The error says: tool error An error occurred running this job:failure preparing job The message in the terminal says:

Re: [galaxy-dev] Tool error occurred when adding my tool to galaxy

2012-12-29 Thread Ross
I'm sure you checked carefully before posting, but your traceback ends with KeyError: 'thype' suggesting maybe a simple syntax/spelling problem to me. On Sat, Dec 29, 2012 at 7:36 PM, Tan Jun tanjun2...@gmail.com wrote: ** Hi, all I'm new here. These days I'm trying to add a tool in Galaxy,

[galaxy-dev] An error occurred running this job: Args must match #! line at /PATHTOGALAXY/galaxy-central-hbc/tools/filters/fixedValueColumn.pl line 1.

2012-04-10 Thread Robert Chase
Hello, When we try to add a column to a dataset we get the following error: An error occurred running this job: *Args must match #! line at /share/shared/galaxy-central-hbc/tools/filters/fixedValueColumn.pl line 1. * Perl documentation says this; (F) The setuid emulator requires that the

Re: [galaxy-dev] An error occurred...

2012-01-18 Thread Milos Busarcevic
Hi Jeremy, Thanks for your effort, but when I cloned the dataset you shared with me and switched it as current history, I still got Error executing tool: 'hg19', after I tried to run Cufflinks on both Tophats, on single and pair end data. All best, Milos On Wed, Jan 18, 2012 at 1:47 AM,

Re: [galaxy-dev] An error occurred...

2012-01-17 Thread Milos Busarcevic
Hi Jeremy, I have shared my history with you. Today, error that appears when I try to run cufflinks has changed into: Error executing tool: 'hg19'. Thanks, Milos On Mon, Jan 16, 2012 at 7:21 PM, Jeremy Goecks jeremy.goe...@emory.edu wrote: Milos, Can you share your history with me (Options -

Re: [galaxy-dev] An error occurred...

2012-01-17 Thread Jeremy Goecks
Milos, I successfully ran Cufflinks on your datasets; I've shared the history with you that has the results. Perhaps you ran into a transient error. Best, J. On Jan 17, 2012, at 8:13 AM, Milos Busarcevic wrote: Hi Jeremy, I have shared my history with you. Today, error that appears when I

Re: [galaxy-dev] An error occurred...

2012-01-16 Thread Jeremy Goecks
Milos, Can you share your history with me (Options - Share or Publish - share with a user -- my email address) and I'll take a look. Thanks, J. On Jan 16, 2012, at 12:46 PM, Milos Busarcevic wrote: Hi, I've got this message after trying to run Cufflinks on the Main instance: Server