[api-dev] Agave status

[Matthew Vaughn]

There’s an issue with the DE and its connection to the Agave app catalog. It should be resolved shortly. 

> On Feb 17, 2016, at 10:55 AM, Duvick, Jonathan P [GDCBS] <jduvick at iastate.edu> wrote:
> 
> My API calls to apps installed at TACC are working, but those same apps no longer appear in the list at 
> 
> https://de.iplantcollaborative.org/de/
> 
> -- seems there was a directory of HPC apps that is now missing, and searching on those apps returns zero results.
> 
> Jon
> 
> Jon Duvick
> PlantGDB Manager
> http://www.plantgdb.org/
> Department of Genetics, Development and Cell Biology
> 2258 Molecular Biology Building
> Iowa State University
> Ames IA 50011
> 
> (515) 294-2360
> (515) 294-6755 FAX
> ________________________________________
> From: api-dev <api-dev-bounces at maillist.cyverse.org> on behalf of Ghiban, Cornel <ghiban at cshl.edu>
> Sent: Wednesday, February 17, 2016 10:36 AM
> To: Duvick, Jonathan P [GDCBS]
> Cc: api-dev at maillist.cyverse.org
> Subject: Re: [api-dev] Agave status
> 
> Hi Matt,
> 
> I did both but after regenerating the API client secret/key (using REST
> calls) it seems to work.
> 
> Thanks,
> Cornel
> 
> On Wed, 2016-02-17 at 16:33 +0000, Matthew Vaughn wrote:
>> Have you regenerated a new client and token set? And if you did, did you use the browser interface or did you use the Agave CLI? If the former, that’s the issue. We should have made it clear that using the browser interface wouldn’t work. So… do this for me:
>> 
>> Update your Agave CLI (cd foundation-cli && git pull) then clients-create -S followed by auth-tokens-create -S . Then, try listing again. I suspect it will work for you then.
>> 
>> Using a non-privledged user, this is what I see after following those steps on a fresh VM
>> 
>> apps-list -P -l 25
>> 
>> SPAdes-hi-mem-3.6.0u1
>> geneseqer-large-stampede-5.0.0u2
>> geneseqer-medium-stampede-5.0.0u2
>> geneseqer-small-stampede-5.0.0u2
>> vContact_pcs-0.1.49u4
>> vContact-0.1.49u2
>> vContact-Gene2Contig-0.1.0u1
>> idba_ud_1000gb_24h-1.1.2u1
>> idba_ud_32gb_24h-1.1.2u1
>> idba_ud_32gb_4h-1.1.2u1
>> MetaGeneMark-2.26.0u1
>> FragGeneScan-1.20.0u1
>> SPAdes-3.6.0u1
>> savp-0.3.1u1
>> Interproscan-5.16.55u2
>> BWA-mem-0.7.12u2
>> CloudSTRUCTURE-2.3.4u2
>> Platypus-0.7.9.5u1
>> Freebayes-0.9.20u1
>> GATK_haplotypecaller-3.2.2u1
>> GATK_combinegvcfs-3.2.2u1
>> GATK_genotypegvcfs-3.2.2u1
>> Picard_preprocess-1.98u1
>> seqtk_seq-1.0.76u1
>> EMS_mutation-1.0.0u1
>> 
>> 
>> 
>>> On Feb 17, 2016, at 10:16 AM, Ghiban, Cornel <ghiban at cshl.edu> wrote:
>>> 
>>> Hi all,
>>> 
>>> There seems to be an issue (or more) with Agave API. I'm not seeing any
>>> applications available. Could anyone tell us what's going on?
>>> 
>>> Thanks,
>>> Cornel
>>> 
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>> 
> 
> 
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