legiolist.properties 3.5 KB
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# This file specifies the how to access local postgres databases used for
# building and running and InterMine.bio warehouse.  Also some configuration
# of InterMine behaviour.

#######################
# database properties #
#######################

# if true will log details about execution time of every query
os.production.verboseQueryLog=true

# Access to the postgres database to build into and access from the webapp
db.production.datasource.serverName=localhost
db.production.datasource.databaseName=PSQL_DB_NAME
db.production.datasource.user=PSQL_USER
db.production.datasource.password=PSQL_PWD

# Temporary database used during the build process, this is re-built
# as sources are loaded and can be discarded once the warehouse build is complete
# It uses the InterMine 'items' metadata format to describe objects.

# common target items database
db.common-tgt-items.datasource.serverName=localhost
db.common-tgt-items.datasource.databaseName=items-PSQL_DB_NAME
db.common-tgt-items.datasource.user=PSQL_USER
db.common-tgt-items.datasource.password=PSQL_PWD


# userprofile database - used by the webapp to store logins, query history,
# saved bags, templates and tags.
db.userprofile-production.datasource.serverName=localhost
db.userprofile-production.datasource.databaseName=userprofile-PSQL_DB_NAME
db.userprofile-production.datasource.user=PSQL_USER
db.userprofile-production.datasource.password=PSQL_PWD

# files for ID resolvers
#resolver.file.rootpath=/DATA/idresolver

#####################
# webapp properties #
#####################

# Web application deployment properties
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# webapp.hostname=localhost
# webapp.port=8080
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# location of tomcat server and path of webapp - e.g. access http://localhost:8080/malariamine
webapp.deploy.url=http://localhost:8080
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webapp.path=PATH
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# tomcat username and password needed to deploy webapp
webapp.manager=TOMCAT_USER
webapp.password=TOMCAT_PWD

# 'Home' link
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webapp.baseurl=BASE_URL
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# account name for superuser (who can edit appearance and publish templates)
superuser.account=rplanel@pasteur.fr
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superuser.initialPassword=password
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# run with no associated web site
project.standalone=true

# details for sending login e-mails
mail.host=localhost
mail.from=account@my_mail_host
mail.subject=Welcome to Legolist
mail.text=You have successfully created an account on Legiolist

# text that appears in the header and elsewhere
project.title=LegioList
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project.subTitle=An integrated database for <i>Legionella pneumophila</i> genomics
project.releaseVersion=
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# various URLs use this as the prefix
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project.sitePrefix=localhost
project.helpLocation=localhost/help
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# recipient of feedback form located on bottom of every page
feedback.destination=rplanel@pasteur.fr
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# JBROWSE
jbrowse.install.url=localhost:8082
org.intermine.webservice.server.jbrowse.genomic.track.Gene.class=Gene
org.intermine.webservice.server.jbrowse.genomic.track.CDS.class=CDS
org.intermine.webservice.server.jbrowse.genomic.track.MRNA.class=MRNA
org.intermine.webservice.server.jbrowse.genomic.track.Pseudogene.class=Pseudogene
org.intermine.webservice.server.jbrowse.genomic.track.TSS.class=TSS
org.intermine.webservice.server.jbrowse.genomic.track.Promoter.class=Promoter
org.intermine.webservice.server.jbrowse.genomic.track.NcRNA.class=NcRNA


org.intermine.webservice.server.jbrowse.genomic.track.Gene.style.color=blue
org.intermine.webservice.server.jbrowse.genomic.track.MRNA.style.color=green
org.intermine.webservice.server.jbrowse.genomic.track.CDS.style.color=red
org.intermine.webservice.server.jbrowse.genomic.track.NcRNA.style.color=yellow