I have downloaded and installed the BB map suite to run stats.sh. However, the BB map suite requires compiling before running it. I have already installed java 18.0.2. for compiling, the instructions were
brew cask install java
cd jni/
JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_74.jdk/Contents/Home make -f makefile.osx
cd -
brew install --with-java open-mpi
ant -Dmpijar=/usr/local/lib/mpi.jar
To build Eclipse project with ant
, you need to put ecj-4.5.2.jar
to /usr/local/Cellar/ant/1.9.6/libexec/lib/
.
I am not able to understand the instructions fro compiling. Can anyone tell me how should i place the commands? I have installed brew too to place out the commands.
also for running the BB mapsuite. The commands were
Running
To run with jar:
java -cp ./dist/lib/BBTools.jar align2.BBMap
java -cp ./dist/lib/BBTools.jar align2.BBMap usejni=t
How should i place the commands?
Once you download and unpack BBMap software do NOT move any files inside the folder. Simply make sure to add the directory containing BBMap software to your
$PATH
.Thanks for mentioning me about the stats.sh of BBmap in my other post. I completely had no idea about this tool ever existed.