weirdness about renaming of the protocols ;)

[GoogleCodeExporter]

Hi,

I was trying to summarize all the open issues.

Do you remember the weird thing about the renaming of the pipeline? Ivo told me 
you were able to reproduce it and indicate me a zipped jar client verison of 
the pipeline in 
/projects1/idinov/projects/Pipeline_genomics_informatics_2011/PipelineWorkflows_
July_2011/others.

I have now the jar file but is doesn't open (see error). I am using the last 
version available on the website now. 

fed

Original issue reported on code.google.com by [email protected] on 18 Aug 2011 at 5:53

Attachments:

• [Screen shot 2011-08-18 at 10.52.41 AM.png](https://storage.googleapis.com/google-code-attachments/informatics/issue-19/comment-0/Screen shot 2011-08-18 at 10.52.41 AM.png)

[GoogleCodeExporter]

Hello,

You need to run the Pipeline.jar file out of a directory that also contains the 
'lib' folder with all the libraries used by Pipeline. The easiest way to do 
this would be to open the directory where your current installation of Pipeline 
resides and replace the Pipeline.jar file with this one. You may want to create 
a backup of the old jar file (just in case you want to revert). Please give 
this a try and let us know if the problem persists.

Thanks,
Alen

Original comment by [email protected] on 18 Aug 2011 at 8:04

[GoogleCodeExporter]

[deleted comment]

[GoogleCodeExporter]

No, I have a Mac, not a PC so in my application folder i have the LONI app (no 
folders, only the icon with the app).

Fed

Original comment by [email protected] on 18 Aug 2011 at 8:18

[GoogleCodeExporter]

I don't have a Mac; but, if I remember correctly, you should be able to 
navigate to that directory through the terminal. Even though it appears as an 
application in the navigator, I do believe that file is, in fact, a directory 
that contains the jar file and the associated lib directory. I could be 
mistaken, though.
-Alen

Original comment by [email protected] on 18 Aug 2011 at 8:30

[GoogleCodeExporter]

Yes, was a permission issue on my mac..I couldn't acces sto the folder. I 
overwrote and now I am using my "personal" beta version. ;) Thanks

Original comment by [email protected] on 18 Aug 2011 at 8:59

[GoogleCodeExporter]

And, BTW, I am not experiencing anymore the weird RENAMING issue..thanks!

fed

Original comment by [email protected] on 19 Aug 2011 at 12:50