[InterMine Dev] malariamine failed to build

Victor Ruotti ruotti at wisc.edu
Fri Mar 18 22:28:41 GMT 2011


I think I got it
My connection limit was set to the to -1. Changed that to 50 and that works.
Victor
[integrate] Creating index: CREATE INDEX DataSet__key_title ON DataSet (name)
[integrate] Creating index: CREATE INDEX DataSource__key_name ON DataSource (name)
[integrate] Creating index: CREATE INDEX Gene__key_secondaryidentifier ON Gene (secondaryIdentifier)
[integrate] Creating index: CREATE INDEX Gene__key_primaryidentifier ON Gene (primaryIdentifier)
[integrate] Creating index: CREATE INDEX Ontology__key_title ON Ontology (name)
[integrate] Creating index: CREATE INDEX OntologyTerm__key_name_ontology ON OntologyTerm (name, ontologyid)
[integrate] Creating index: CREATE INDEX Organism__key_taxonid ON Organism (taxonId)
[integrate] Creating index: CREATE INDEX ProteinDomain__key_identifier ON ProteinDomain (primaryIdentifier)
[integrate] Creating index: CREATE INDEX Publication__key_pubmed ON Publication (pubMedId)
[integrate] Creating index: CREATE INDEX Synonym__key_synonym ON Synonym (subjectid, intermine_value)

do-action:

-post-action:

action:

default:

BUILD SUCCESSFUL
Total time: 1 minute 51 seconds


On Mar 18, 2011, at 5:08 PM, Victor Ruotti wrote:

> Hi Andrew,
> Good seeing you in the forum.
> I'm able to log in with the same user name and password via the terminal to both the malariamine and the items-malariamine.
> hostname is localhost for now.
> wireless-181:bin victor$ psql -d malariamine
> Password: 
> psql (8.4.7)
> Type "help" for help.
> 
> malariamine=# \q
> wireless-181:bin victor$ psql -d items-malariamine
> Password: 
> psql (8.4.7)
> Type "help" for help.
> 
> items-malariamine=# 
> 
> Victor
> 
> On Mar 18, 2011, at 4:45 PM, Vallejos, Andrew wrote:
> 
>> I believe this error is caused by mis-configuration in your ~/.intermine/malariamine.properties file.  Check to make sure your postgres username, password, and host are all et properly.
>> 
>> -Andrew 
>> 
>> -----Original Message-----
>> From: dev-bounces at intermine.org on behalf of Victor Ruotti
>> Sent: Fri 3/18/2011 4:43 PM
>> To: dev at intermine.org
>> Subject: [InterMine Dev] malariamine failed to build
>> 
>> Hi,
>> I followed the instructions on getting all the prerequisites as well as setting up intermine the 0_96 release.
>> I was trying to build the malaria mine and got the following error.
>> I was able to create both malariamine and itemsmalariamine. Also able to log in with the username and password.
>> 
>> Something related with not being able to open the datasource. I might be missing something I'm sure.
>> Any ideas would be greatly appreciated.
>> Thanks,
>> Victor
>> 
>> 
>> BUILD FAILED
>> /Users/victor/intermine/intermine_0_96/imbuild/integrate.xml:54: The following error occurred while executing this line:
>> /Users/victor/intermine/intermine_0_96/imbuild/source.xml:330: java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true
>> Problem while loading item identifier 1_2 because
>> can't open datasource for {platform=PostgreSQL, datasource.dataSourceName=db.common-tgt-items, datasource.maxConnections=10, datasource.databaseName=items-malariamine, datasource.class=org.postgresql.ds.PGPoolingDataSource, datasource.password=mypassword, datasource.user=postgres, datasource.serverName=localhost, driver=org.postgresql.Driver} org.postgresql.Driver PostgreSQL
>> 
>> 
>> 
>> 
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>> 
>> 
> 
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