[InterMine Dev] Errors in Malariamine Build Logs

Julie Sullivan julie at intermine.org
Thu Jan 19 11:05:22 GMT 2017


Hi Norbert!!

Yes, those are fine. Those messages should be labelled as INFO or at the 
most a WARN. I'll make a ticket to update!

I'm glad you got MalariaMine working! Please let us know if you have 
more questions. We are on discord at chat.intermine.org too.

Cheers,
Julie

On 01/19/2017 10:44 AM, Norbert Auer wrote:
> Hi all,
>
> Currently I am working through the malariamine tutorial.
>
> Although I got BUILD SUCCESSFUL for
>
> cd ./malariamine/dbmodel
> ant clean build-db
>
> and
>
> cd ./malariamine/integrate
> ant -Dsource=uniprot-malaria -v
>
> I found a lot of Errors in the intermine logs.
>
> For example:
> # dbmodel/intermine.log
>
> WARN         org.intermine.task.BuildDbTask     - Failed to remove all
> tables from database: org.postgresql.util.PSQLException: ERROR: sequence
> "serial" does not exist
>
> # integrate/intermine.log
>
> ERROR     org.intermine.util.PropertiesUtil     - Could not find file
> uniprot-malaria_keys.properties from
> AntClassLoader[/data/intermine/malariamine/integrate/resources:...
>
> ERROR org.intermine.bio.dataconversion.UniprotConverter     - no valid
> gene identifiers found for O15770
>
>  ERROR org.intermine.dataloader.IntegrationWriterAbstractImpl     - Data
> source should not contain data in the one to many relation
> DataSource.dataSets, as it is ignored. Put the data into the reverse
> reference instead.
>
> org.postgresql.util.PSQLException: ERROR: relation "dataset__key_title"
> already exists
>
> So my question is: Is this is a normal output and can I ignore these
> errors or is something wrong with my setup.
>
> Best,
>
> Norbert
>
>
>
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>


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