[Iplant-api-dev] DO NOT REPLY "problem running cloudSTRUCTURE"

[Dennis Roberts]

Hi Liya,

I found the job submission and retrieved some information about the job submission from the Foundation API. I’m afraid this is as much troubleshooting as I can do from the DE side. Please let me know if more information is needed.

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Thanks,
Dennis

> On Jan 16, 2015, at 10:21 AM, Wang, Liya <wangli at cshl.edu> wrote:
> 
> This Foundation app runs on Lonestar. I just tested it and it runs for ever from DE.
> 
> Begin forwarded message:
> 
> From: <ask at iplantcollaborative.org<mailto:ask at iplantcollaborative.org>>
> Subject: DO NOT REPLY "problem running cloudSTRUCTURE"
> Date: January 16, 2015 4:32:43 AM EST
> To: <wangli at cshl.edu<mailto:wangli at cshl.edu>>
> Reply-To: <ask at iplantcollaborative.org<mailto:ask at iplantcollaborative.org>>
> 
> 
> 
> sopicq<http://ask.iplantcollaborative.org/users/573/sopicq/> posted a question<http://ask.iplantcollaborative.org/question/2912/problem-running-cloudstructure/>.
> 
> Question : problem running cloudSTRUCTURE
> 
> Asked by sopicq:
> 
> Tags: DataStore, DiscoveryEnvironment.
> 
> I am having problems running cloudSTRUCTURE, even with the test data provided. The problem is that regardless of how much maximum run time I select, the status of the analysis does not change from 'Running' and no output is saved ever. I am not sure if the analysis is actually running or not as I don't get any error messages.
> 
> For the test data, these are the settings I used: input file: /iplant/home/shared/iplantcollaborative/example_data/GWAS/Structure/input/marker_numerical.txt
> 
> maximum populations 3, 12982 as number of loci, 310 as number of samples
> 
> File information was left with default settings: Input file contains individual labels, Input file contains row of marker names, Store data for individuals in a single line
> 
> Maximum Run time: 4 hours
> 
> Thank you for your help !
> 
> Sophie
> 
> ======= Full thread summary =======
> 
> Question : problem running cloudSTRUCTURE
> 
> Asked by sopicq:
> 
> Tags: DataStore, DiscoveryEnvironment.
> 
> I am having problems running cloudSTRUCTURE, even with the test data provided. The problem is that regardless of how much maximum run time I select, the status of the analysis does not change from 'Running' and no output is saved ever. I am not sure if the analysis is actually running or not as I don't get any error messages.
> 
> For the test data, these are the settings I used: input file: /iplant/home/shared/iplantcollaborative/example_data/GWAS/Structure/input/marker_numerical.txt
> 
> maximum populations 3, 12982 as number of loci, 310 as number of samples
> 
> File information was left with default settings: Input file contains individual labels, Input file contains row of marker names, Store data for individuals in a single line
> 
> Maximum Run time: 4 hours
> 
> Thank you for your help !
> 
> Sophie
> 
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