Install a bank

You can run a bank installation from the command-line as follows:

bdm install -desc SwissProt_human

where - 'SwissProt_human' is the name of the bank descriptor to use to start
        bank installation (more on this later)

Note: during script execution, there is nothing displayed on the terminal whether something goes 'ok' or 'wrong'. However, BeeDeeM logs all its work in a dedicated log file located in ${workingDir}

Once execution finishes, check the contents of the BeeDeeM log file.

$ cat ${workingDir}/dbms-SwissProt_human.log | grep WARN

where ${workingDir} should be replaced by the working directory of BeeDeeM

If there are some WARN lines in the logs, then refer to the section Appendix – Common errors.

Otherwise, it means the SwissProt_human bank (Uniprot annotated formatand BLAST formated bank) is now installed on your system.

Common descriptors

BeeDeeM is provided with a common list of bank descriptors available in its conf/descriptors folder. These are the files suffixed with '.dsc' extension. Simply provide that file name (without path and extension) to the install.sh command line tool.

In our above example:

install.sh -desc SwissProt_human

implies that you have the file 'SwissProt_human.dsc' within 'conf/descriptors' folder of BeeDeeM.

You can get an overview all all available bank descriptors using:

bdm desc -l

Bank descriptors are fully described in a separate section.

Install more databanks

If the above test was successful, you can continue to install other databanks:

• from the command-line, jump to CmdLineInstaller
• from the graphical interface, jump to UiInstaller