//GWAS Related Configuration: com.recomdata.dataUpload.appTitle="Upload data to tranSMART (GPL)" com.recomdata.dataUpload.templates.dir="/home/transmart/templates/" com.recomdata.dataUpload.uploads.dir="/vol1/transmart/uploads/" com.recomdata.dataUpload.adminEmail="mailto:DL-tranSMART_Support@transmartfoundation.org" com.recomdata.dataUpload.etl.dir="/vol1/transmart/ETL/" com.recomdata.dataUpload.stageScript="run_analysis_stage"
// Folder Manager com.recomdata.FmFolderService.importDirectory = '/vol1/transmart/import' com.recomdata.FmFolderService.filestoreDirectory = '/vol1/transmart/filestore' //Mail Configuration
grails.mail.host = "mailhub.transmartFoundation.org" grails.mail.port = 25 grails.mail.props = ["mail.smtp.auth":"false", "mail.smtp.starttls.enable":"true"] // grails.mail.props = ["mail.smtp.auth":"false", // "mail.smtp.socketFactory.port":"25", // "mail.smtp.socketFactory.class":"javax.net.ssl.SSLSocketFactory", // "mail.smtp.socketFactory.fallback":"false"] grails.mail.default.from = "DL-tranSMART_Support@transmartfoundation.org" grails.mail.attachments.dir = "/home/transmart/export"
//GWAS Related Configuration: com.recomdata.dataUpload.appTitle="Upload data to tranSMART (GPL)" com.recomdata.dataUpload.templates.dir="/home/transmart/templates/" com.recomdata.dataUpload.uploads.dir="/vol1/transmart/uploads/" com.recomdata.dataUpload.adminEmail="mailto:DL-tranSMART_Support@transmartfoundation.org" com.recomdata.dataUpload.etl.dir="/vol1/transmart/ETL/" com.recomdata.dataUpload.stageScript="run_analysis_stage"
// Folder Manager com.recomdata.FmFolderService.importDirectory = '/vol1/transmart/import' com.recomdata.FmFolderService.filestoreDirectory = '/vol1/transmart/filestore' //Mail Configuration
grails.mail.host = "mailhub.transmartFoundation.org" grails.mail.port = 25 grails.mail.props = ["mail.smtp.auth":"false", "mail.smtp.starttls.enable":"true"] // grails.mail.props = ["mail.smtp.auth":"false", // "mail.smtp.socketFactory.port":"25", // "mail.smtp.socketFactory.class":"javax.net.ssl.SSLSocketFactory", // "mail.smtp.socketFactory.fallback":"false"] grails.mail.default.from = "DL-tranSMART_Support@transmartfoundation.org" grails.mail.attachments.dir = "/home/transmart/export"
Update run_analysis_stage, load_analysis_stage.sh, move_analysis_to_biomart.sh, nightly_processing.sh to point to the respective directories of the scripts. ADD FMAPP configuration to kettle.properties:
FMAPP_DB_SERVER=dbserver.com FMAPP_DB_PORT=1524 FMAPP_DB_USER=fmapp FMAPP_DB_PWD=fmapp
Update ARCHIVE_DIR variable in Kettle-ETL/load_analysis_from_lz_to_staging.kjb