Reetu and Friends
Reetu Tuteja - Created the Sequenceserver2.0 app on Discovery Environment
Jennen Maryniak - presentation
Jiatian Wang - initial Makeflow and Work Queue scripts
Erika Tapia - benchmarking and documentation
An implementation of Discovery Environment using an app created via VICE in CyVerse.
(Through Discovery Environment, open a SequenceServer app, upload a query through the input GUI on DE, run, and look at analysis.)?
Benchmarking was ran by running the sequenceserver app we created in the Discovery Environment (DE) within CyVerse. Before launching the app, the number of cores was specified in the drop-down field "Number of threads":
The running analysis was accessed which allowed us to paste the protein sequences in Sequence Server to run BLAST:
Conclusions: Sequence server ran on the same set of protein sequences and database on 1, 2, 4 and 8 cores. A significant decrease in run-time was observed as more cores were involved in running queries. Running queries on 8 cores clearly reduces run-time as compared to running queries on simply 1 core.
Number of Protein Sequences