luzhangstat/jamajnilite

JAMAJniLite is a sibling package of JAMAJni, which is uses blas and lapack libraries for numerical linear algebra computations.

JAMAJniLite

JAMAJniLite is a sibling package of JAMAJni. It is a JAVA package providing a java interface for lapack and blas library and using the classes defined by JAMA Package. It's a tool for numerical linear algebra computations. JAMAJniLite calls lapack and blas libraries which require previous installation (Detailed installation instructions are listed below). You can also use openblas library(which is an optimized blas and lapack library by changing the Makefile).

Build Instructions

• JAMAJniLite requires the installation of lapack and blas. (The command in Ubuntu is sudo apt-get install libblas-dev liblapack-dev).

• To compile the package, enter src directory and copy the makefile based on the operating system.

For Linux user, use the following commands:

cd src
cp Makefile.linux Makefile
Make

For Mac user, use the following commands:

cd src
cp Makefile.mac Makefile
Make

• To clean generated file, type make clean on the command line.

• For linus user, if you would like to use openblas library, you can install openblas by command sudo apt-get install libopenblas-dev. Then you need to replace all the -llapack and -lblas by the -lopenblas in Makefile.

Running the tests

• For testing, enter test directory and execute make . If you want to clean testing results and all class files, type make clean.

• There are four test files. The "JAMAJniLiteTest.java" will test all the methods in JAMAJniLite and report the errors. The "JAMAJniLiteExamples.java" will provide specific examples for basic linear algebra operations. It can clearly show you how to use methods defined in JAMAJniLite. If you are interested in how to use functions in blas and lapack libraries to do matrix operations, the "JAMAJniLiteExamplesBLAS.java" and "JAMAJniLiteExamplesLAPACK.java" will give you specific examples. However, it is not necessary to go into blas and lapack if you just want to be a user of JAMAJniLite.

Notes

This package is intended for some basic problems we encounter when solving linear algebra problems. So we only include several most basic and widely used routines of the blas and lapack library.

Source Repository

JAMAJniLite's source-code repository is hosted here on GitHub.

Authors

Name	Email
Xiang Chen (maintainer)	[email protected]	Visiting student, Department of Biostatistics UCLA
Lu Zhang	[email protected]	PhD student, Department of Biostatistics UCLA
Sudipto Banerjee	[email protected]	Professor, Department of Biostatistics UCLA

Licensing

JAMAJniLite is licensed under the Creative Commons Attribution License.