Folks: Much delayed as version 2 went through many rewrites, and we did not release early or often. This will be corrected. http://scalableinformatics.com/BBS/ and http://bioinformatics.org/bbs (they are identical) Much is new in version 3. 1) You no longer need to modify program source to setup your benchmark. A simple XML input file will do. 2) A number of examples are included. We need to document the format better, though if you read the format, you will see that it really isn't complex (this is what took so long oddly enough) 3) A bbsv1.xml input deck that replicates the original benchmarks from last year is included. 4) New baseline example tests have been created using HMMer, multiple BLAST runs, and others. Further baseline tests will be added (and suggestions are always welcome). We are looking at a number of codes including ClustalW, and various chemistry and proteomics codes. 5) Output in multiple formats: plain text, csv (comma separated values), and XML. 6) A dryrun option. Does everything but the final execution. Uses a random sleep rather than a run. Much more code, some of it hinting at things to come. Quite scalable: we ran 100 simultaneous tests on a laptop (learning some surprising things about DBM and performance loss in the process). Documentation has been created at least in the form of man pages. More documentation should be available soon, with details of the formats, configuration, and so forth The code is heavily commented. It is GPLed for GPL projects/products. For commercial products which need to be non-GPL and supported efforts, please contact us. Please give it a spin, and send us a note as to how you found it, what else you might like on it, and what tests you would like to see. If you want to contribute an idea for a test, or even better, a test, please send a note. If you want to help out on coding, please send a note as well. Thanks! -- Joseph Landman, Ph.D Scalable Informatics LLC, email: landman at scalableinformatics.com web : http://scalableinformatics.com phone: +1 734 612 4615