Lamp-DP-MT

Setup instructions for running LMS

1. Locally publish lms
   • $ git clone https://github.com/TiarkRompf/virtualization-lms-core.git
   • $ cd virtualization-lms-core
   • $ git checkout develop
   • patch project/Build.scala:
     • val scalaTest = "org.scalatest" % "scalatest_2.10.0" % "2.0.M5" % "test"
     • val virtScala = Option(System.getenv("SCALA_VIRTUALIZED_VERSION")).getOrElse("2.10.0")
   • patch project/build.properties:
     • sbt.version=0.12.1
   • $ sbt publish-local
2. Run the optional tutorial
   • $ git clone https://github.com/julienrf/lms-tutorial.git
   • $ cd lms-tutorial && sbt run tutorial.Usage

Setup instructions for running the project

1. Checkout
   • $ git clone https://github.com/manojo/lamp-dp-mt.git
   • $ cd lamp-dp-mt
2. Run Scala parsers (with SBT)
   • Run simple tests: $ sbt 'clean' 'librna' 'run-main v4.examples.Tests' (only 1 instance of SBT)
   • Run any program: $ sbt run
   • Run Zuker folding: $ sbt zuker
   • Run RNAFold: $ sbt rnafold
   • Other problems: mm1,mm2,mm3,align,zuker,rnafold can be run from within SBT
3. Legacy: run CUDA parsers (without SBT)
   • Run CUDA tests: $ ./build
   • Cleanup: $ ./build clean
   • Get the program list: $ ./build help those ending with Gen are CUDA-enabled
   • Run a program with: $ ./build <class>