Commit 4ff5a617 authored by root's avatar root

removed customed files

parent eb3cfa53
// sample configuration file
// replace DB parameters and dataDir with the actual values
db.hostname = 'localhost'
db.port = 5432 // change this to 5432 for PostgreSQL version
db.sid = 'xe'
db.username = 'tm_dataloader'
db.password = 'tm_dataloader'
// Comment or delete the following two lines for PostgreSQL:
//db.jdbcConnectionString = "jdbc:oracle:thin:@//${db.hostname}:${db.port}/${db.sid}"
//db.jdbcDriver = 'oracle.jdbc.driver.OracleDriver'
// Uncomment the following 3 lines for PostgreSQL:
db.jdbcConnectionString = "jdbc:postgresql://${db.hostname}:${db.port}/transmart"
db.jdbcDriver = 'org.postgresql.Driver'
db.sql.storedProcedureSyntax = 'PostgreSQL'
// The following specifies a directory containing studies
// It should have the proper data structure, for instance:
// Public Studies
// Multiple Sclerosis_Baranzini_GSE13732
// ClinicalData
// ExpressionData
// Multiple Sclerosis_Goertsches_GSE24427
// ClinicalDataToUpload
// ExpressionDataToUpload
// As of 0.8 and higher, folders can be nested, e.g: \Public Studies\Test\Multiple Sclerosis_Baranzini_GSE13732
dataDir = '/home/transmart/tMDataLoader/studies'
// Do not rename if failed (-n option)
// isNoRenameOnFail = true
// Override default ETL behavior and put VISIT NAME prior to data value (--visit-name-first option)
// If you set this, you may still use --data-value-first to override
// visitNameFirst = true
# Database administrative login by Unix domain socket
local all postgres peer
# "local" is for Unix domain socket connections only
local all all md5
# IPv4 local connections:
host all all md5
# IPv6 local connections:
host all all ::1/128 md5
# Allow replication connections from localhost, by a user with the
# replication privilege.
local replication all peer
host replication all md5
host replication all ::1/128 md5
# Run Tomcat as this user ID. Not setting this or leaving it blank will use the
# default of tomcat8.
# Run Tomcat as this group ID. Not setting this or leaving it blank will use
# the default of tomcat8.
# The home directory of the Java development kit (JDK). You need at least
# JDK version 8. If JAVA_HOME is not set, some common directories for
# OpenJDK and the Oracle JDK are tried.
# You may pass JVM startup parameters to Java here. If unset, the default
# options will be: -Djava.awt.headless=true -XX:+UseConcMarkSweepGC
# Use "-XX:+UseConcMarkSweepGC" to enable the CMS garbage collector (improved
# response time). If you use that option and you run Tomcat on a machine with
# exactly one CPU chip that contains one or two cores, you should also add
# the "-XX:+CMSIncrementalMode" option.
#JAVA_OPTS="-Djava.awt.headless=true -XX:+UseConcMarkSweepGC"
JAVA_OPTS="-Djava.awt.headless=true -Xms512m -Xmx2g -XX:+UseConcMarkSweepGC"
# To enable remote debugging uncomment the following line.
# You will then be able to use a java debugger on port 8000.
#JAVA_OPTS="${JAVA_OPTS} -Xdebug -Xrunjdwp:transport=dt_socket,address=8000,server=y,suspend=n"
# Java compiler to use for translating JavaServer Pages (JSPs). You can use all
# compilers that are accepted by Ant's build.compiler property.
# Use the Java security manager? (yes/no, default: no)
# Number of days to keep logfiles in /var/log/tomcat8. Default is 14 days.
# Whether to compress logfiles older than today's
# Location of the JVM temporary directory
# WARNING: This directory will be destroyed and recreated at every startup !
# If you run Tomcat on port numbers that are all higher than 1023, then you
# do not need authbind. It is used for binding Tomcat to lower port numbers.
# (yes/no, default: no)
\ No newline at end of file
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