ILRI Research Computing

There are two websites with PASA packages, but the sourceforge one seems more up to date.

• http://pasa.sourceforge.net/
• http://www.lerner.ccf.org/moleccard/qin/pasa/

PASA is installed and there is a web interface currently running here:

• http://hpc.ilri.cgiar.org/cgi-bin/PASA/cgi-bin/status_report.cgi?db=pasa_tp_mar
• http://hpc.ilri.cgiar.org/cgi-bin/PASA/cgi-bin/status_report.cgi?db=pasa_tp_mar_chr2
• http://hpc.ilri.cgiar.org/cgi-bin/PASA/cgi-bin/status_report.cgi?db=pasa_tp_mar_chr3_530
• http://hpc.ilri.cgiar.org/cgi-bin/PASA/cgi-bin/status_report.cgi?db=pasa_tp_mar_chr3_531
• http://hpc.ilri.cgiar.org/cgi-bin/PASA/cgi-bin/status_report.cgi?db=sample_mydb_pasa

I'm not sure if there is other functionality, such as a "start page" or the like.

From the PASA sourceforge documentation:

(optional, but highly recommended)

Recursively copy (cp -r) the $PASAHOME area to the cgi-bin directory of your webserver. Change permissions on everything so that it is world executable (ie. % chmod -R 755 ./PASA ) Now, visit the URL for the status report page for the pasa database you created during the pasa run above.

http://yourServerName/cgi-bin/PASA/cgi-bin/status_report.cgi?db=$mysqldb

This will provide some summary statistics and links to additional web-based utilities for navigating the results from your pasa run.

Now that you have a URL for your base PASA url, update your original configuration file at: $PASAHOME/pasa_conf/conf.txt to set the value of BASE_PASA_URL=http://yourServerName/cgi-bin/PASA/cgi-bin/