[ome-users] cannot find results for 'find and track spots'

[Josiah Johnston]

This message bounced off the list last time I sent it. Now that is 
fixed, and it can go up for posterity. Jason's coverage of the issue 
mostly overlaps this, but not completely. I've also addressed this 
problem in the main branch of cvs. When viewing node executions, the 
links that we guess you would want to click on are in bold, and fewer 
links are displayed.

I'll start with a disclaimer, the analysis portion of OME is fairly 
functional, but isn't terribly user friendly. We plan to correct that 
in our next release.

Currently, the UI expects you to have some knowledge of the underlying 
data model. Briefly, a chain is made of nodes. Nodes correspond to 
analysis modules. A chain execution is made of Node Executions. Each 
node in the chain will have one or more executions. A node execution 
corresponds to exactly one module Executions. The payload is in the 
Module Executions. For a better overview, you can read 
http://www.openmicroscopy.org/concepts/analysis-modules.html

The upshot: To view the results of a "Find and track spots" chain 
execution,
	get to the page that starts out with "AnalysisChainExecution (ID xxx)"
	click "Find spots" to see its node executions
	You should get a list of node executions, near the bottom of each you 
should see: "Find Spots ran against <image_thumbnail>"
	Click on the "Find Spots" in that sentence for the image you are 
interested in.
	You've now arrived at your data.

 From the Module Execution page, you can check out the numeric data in 
table format, or view the centroids of the spots as graphic overlays in 
the SVG viewer.

Regarding the second question, the owner of a chain can be distinct 
from the owner of a chain execution. Often, an administrator type will 
import a chain and biologist types will run it against their datasets. 
The Find and track spots chain gets imported during installation.

-Josiah

On Apr 18, 2005, at 4:35 AM, henley at bii-sg.org wrote:

>  Hi all,
>
>  I am a newbie to OME who has a question about using the
>  'Find and track spots' analysis function in the OME
>  Web Interface.
>
>  After running the 'Find spots' analysis, I dont seems to
>  be able to "find" the results to the analysis, using
>  the 'View Chain Results' link in the same navigation panel on
>  the left. All that was in that link is simply meta data
>  of the analysis chain that i have run previously. e.g
>  dataset,experimenter,time stamp etc which I do not think is
>  the results for the 'Find and track spots' analysis per se.
>
>  Does anyone know from which part of the web interface can
>  I retrieve my results for the 'Find and track spot' analysis ?
>
>  When i click on the 'view chain results' -> 'Find and track spot' link
>  I find that the "owner" of the AnlaysisChain is different from the
>  experimeter that is stated in 'view chain results' page.
>  Is that normal ? If not is this the cause of the problem that I have
>  described earlier ?
>
>
>  Any help here would be much appreciated even though i know
>  am asking some very basic user level questions :)
>
>  Rgds
>  Henley
>  --
>  HenLey Hor
>  Software Developer
>  Software Engineering Group
>  Bioinformatics Institute
>
>
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