On Wed, Dec 10, 2014 at 5:46 AM, Peter Cock <p.j.a.c...@googlemail.com> wrote:
> On Thu, Nov 27, 2014 at 1:58 PM, Peter Cock <p.j.a.c...@googlemail.com> wrote:
>> Hi Guys,
>>
>> I retitled this since the TestToolShed does seem to be running tests
>> regularly again. However, I still have a fair number failing with the
>> cryptic status "Exception: History in error state."
>>
>> I guess the logging changes John tried are not propagated to the
>> user-facing output on the ToolShed, but might still offer you some
>> clues?
>>
>> It appears from the stack trace to be something with uploading
>> the test input files into the new history?
>>
>> My current list of tools with failing tests is:
>>
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/blast2go
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/blastxml_to_top_descr
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/clinod
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/fastq_paired_unpaired
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/get_orfs_or_cdss
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/mira_assembler
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/ncbi_blast_plus
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/nlstradamus
>> https://testtoolshed.g2.bx.psu.edu/view/peterjc/seq_primer_clip
>>
>> I have updated some of the tools I listed below (in the older email),
>> so their latest revision has not yet been tested.
>>
>> Regards,
>>
>> Peter
>
> Hi guys,
>
> The good news is my list of failing tools has shrunk to the following,
> none of which seem to have been tested yet in December, stuck
> with "Exception: Job in error state.":
>
> https://testtoolshed.g2.bx.psu.edu/view/peterjc/blast2go
> https://testtoolshed.g2.bx.psu.edu/view/peterjc/blastxml_to_top_descr
> https://testtoolshed.g2.bx.psu.edu/view/peterjc/clinod
> https://testtoolshed.g2.bx.psu.edu/view/peterjc/mira_assembler
> https://testtoolshed.g2.bx.psu.edu/view/peterjc/nlstradamus
>
> Meanwhile, on the main tool,  "Exception: Job in error state."
> and not yet tested in December:
>
> https://toolshed.g2.bx.psu.edu/view/peterjc/blast2go
>
> It would be nice to have a more informative error here...

Ugh - yes it clearly would - very sorry about that.

https://trello.com/c/BZUaMnJB

>
> Have these tools been automatically earmarked not to be retested?
> Note that some tools have been tested earlier this month:
>
> I also have a legitimate failure for missing tests, run 2014-12-09,
> https://testtoolshed.g2.bx.psu.edu/view/peterjc/ncbi_blast_plus
>

Interesting... some tests did run though? Does the framework not
report passing tests - seems like it would be hard to know if it
working in that case.

-John

> And again, a legitimate failure for some missing tests on the
> main Tool Shed, also run on 2014-12-09,
> https://toolshed.g2.bx.psu.edu/view/devteam/ncbi_blast_plus
>
> Regards,
>
> Peter
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