Difference between revisions of "Brute force - modencode migration"
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Jump to navigationJump to search (New page: * Get account on modencode.oicr.on.ca (email helpdesk@oicr.on.ca with request) ** this is their gbrowse production server ** Configuration files: /var/www/conf/ *** look at worm.conf Da...) |
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| − | + | Get account on modencode.oicr.on.ca (email helpdesk@oicr.on.ca with request) this is their gbrowse production server. | |
| − | + | * Configuration files: /var/www/conf/ | |
| − | + | * look at worm.conf | |
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Databases stuff only needed for wiggle data, skip down for sam/bam: | Databases stuff only needed for wiggle data, skip down for sam/bam: | ||
Revision as of 14:19, 7 April 2010
Get account on modencode.oicr.on.ca (email helpdesk@oicr.on.ca with request) this is their gbrowse production server.
- Configuration files: /var/www/conf/
- look at worm.conf
Databases stuff only needed for wiggle data, skip down for sam/bam:
- dump databases using mysqldump (to find out which ones to get, look at conf files)
- mysqldump -uviewer -pviewer database_name > database_dump.sql
- copy database_dump.sql files to wb-dev
- import databases
- first create database database_name
- CREATE DATABASE database_name; (as root)
- mysql -uroot -p database_name < database_dump.sql
- grant select privileges to 'nobody' on the new database
- GRANT SELECT ON `database_name`.* TO 'nobody'@'localhost';
- first create database database_name
Browser Data:
- copy relevant browser_data (wiggle files/sambam) to the same location on wb-dev
- /browser_data/worm/wiggle_binaries/PI_NAME
- /browser_data/worm/sam_binaries/PI_NAME
Config:
- copy relevant conf files to wb-dev
- -> modencode: /var/www/conf/FOLDER_SPECIFIED_IN_WORM.CONF
- -> wb-dev : /usr/local/wormbase/gbrowse_current/conf/FOLDER_SPECIFIED_IN_WORM.CONF
- look at worm.conf and copy the appropriate #include function and database definitions to c_elegans.conf
