WebFcmp uses 'clonenames.txt' file which contains clone names and indexes into the FPC .cor file. The ScriptDir/clonenames.pl reads the FPC file and creates the file 'clonenames.txt' in <HTML_DIR_PATH>/WebAGCoL/<MAP_NAME>/Data directory. When a set of clones are submitted, the CGI script fcmp.cgi executes FPC in batch mode, and outputs the results into a temporary 'tmp' directory which is then displayed in browser.

FILE FORMATS & CONFIG   Back to top

There are often multiple libraries in a FPC file, so there is a drop-down menu on the WebFcmp that allows the user to select the library to assist in getting the clone name. For example, our rice FPC is made of OSJNBa and OSJNBb. In FPC, we leave off the OSJNB and just prefix each clone with a or b. The LIBRARY_NAME variable in config file lets you specify the prefixes, e.g. we use prefixes a and b for rice. These values will be shown in the Library drop-down menu.
Note: If the Library naming schemes are different then you need to modify the clonenames.pl in ScriptDir directory and fcmp_plate.cgi in /WebAGCoL/WebFcmp directory to parse the plate names.

There is no input file for this tool.