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==GBrowse Configuration Setup== | ==GBrowse Configuration Setup== | ||
===Gbrowse | ===Gbrowse Config Files=== | ||
Since Gbrowse needs to be able to read config files of all users within a group, the config files for each group are installed in /project and on following directories: | Since Gbrowse needs to be able to read config files of all users within a group, the config files for each group are installed in /project and on following directories: | ||
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where GROUPID is your group id and USERID is the your username. There is a symbolic link from this directory to ${HOME}/gbrowse/conf just for simplicity so that you can get access to files within this directory easier. Files in this directory should be readable for all member of the group therefore, please do not change the group permission of files in this directory. | where GROUPID is your group id and USERID is the your username. There is a symbolic link from this directory to ${HOME}/gbrowse/conf just for simplicity so that you can get access to files within this directory easier. Files in this directory should be readable for all member of the group therefore, please do not change the group permission of files in this directory. | ||
===Setup Database | |||
GBrowse uses two sources of input, files and database. Before using GBrowse users require to setup their own database. More information about database of computecanada is here. If you decide to use MySQL as your database you can use the following setup in your corresponding GBrowse config files to make MySQL connection from your GBrowse: | |||
db_args = -adaptor DBI::mysql | |||
-dsn [database name];mysql_read_default_file=/project/GROUPID/gbrowse/USERID/conf/.my.cnf | |||
-user [username] | |||
where [username] is the corresponding user name and [database name] is the name of the database. | |||