Examples of edu.ucla.sspace.matrix.MatrixFile

edu.ucla.sspace.matrix.MatrixFile
An abstraction of a matrix that is stored on disk. This class provides convenient accessors to the contents of the data and allows other classes that operate on matrices to more easily handle matrix files as parameters and return arguments.

                coalsMatrixFile.deleteOnExit();
                MatrixIO.writeMatrix(finalCorrelation,
                                     coalsMatrixFile,
                                     Format.SVDLIBC_SPARSE_BINARY);


                MatrixFile processedSpace = new MatrixFile(
                        coalsMatrixFile, Format.SVDLIBC_SPARSE_BINARY);
                reducer.factorize(processedSpace, reducedDimensions);


                finalCorrelation = reducer.dataClasses();
            } catch (IOException ioe) {

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     *        properties.
     */
    public void processSpace(Properties properties) {
        // Perform any optional transformations (e.g., tf-idf) on the
        // term-document matrix
        MatrixFile processedSpace = processSpace(transform);


        LoggerUtil.info(LOG, "reducing to %d dimensions", dimensions);


        // Compute the SVD on the term-document space
        reducer.factorize(processedSpace, dimensions);

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            String transformClass = 
                properties.getProperty(MATRIX_TRANSFORM_PROPERTY);
            if (transformClass != null)
                transform = ReflectionUtil.getObjectInstance(transformClass);


            MatrixFile transformedMatrix = processSpace(transform);


            // Set all of the default properties
            int dimensions = 300; 


            // Then load any of the user-specified properties
            String dimensionsProp = 
                properties.getProperty(LPSA_DIMENSIONS_PROPERTY);
            if (dimensionsProp != null) {
                try {
                    dimensions = Integer.parseInt(dimensionsProp);
                } catch (NumberFormatException nfe) {
                    throw new IllegalArgumentException(
                        LPSA_DIMENSIONS_PROPERTY + " is not an integer: " +
                        dimensionsProp);
                }
            }


            LoggerUtil.verbose(LOG, "reducing to %d dimensions", dimensions);


            Matrix termDocMatrix = MatrixIO.readMatrix(
                transformedMatrix.getFile(), 
                transformedMatrix.getFormat(), 
                Matrix.Type.SPARSE_IN_MEMORY, true);


            // Calculate the affinity matrix for the term-doc matrix
            MatrixFile affinityMatrix = affinityCreator.calculate(
                termDocMatrix);


            // Using the affinity matrix as a guide to locality, project the
            // co-occurrence matrix into the lower dimensional subspace
            wordSpace = LocalityPreservingProjection.project(

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    }


    public Assignments cluster(Matrix matrix, 
                               int numClusters,
                               Properties props) {
        MatrixFile affinityMatrix = creator.calculate(matrix);
        return linkCluster.cluster(affinityMatrix.load(), numClusters, props);
    }

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        MatrixFile affinityMatrix = creator.calculate(matrix);
        return linkCluster.cluster(affinityMatrix.load(), numClusters, props);
    }


    public Assignments cluster(Matrix matrix, Properties props) { 
        MatrixFile affinityMatrix = creator.calculate(matrix);
        return linkCluster.cluster(affinityMatrix.load(), props);
    }

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        } catch (Throwable t) {
            t.printStackTrace();
        }


        // Calculate the affinity matrix for the cooccurrence matrix
        MatrixFile affinityMatrix = affinityCreator.calculate(
                cooccurrenceMatrix);
        
        // Using the affinity matrix as a guide to locality, project the
        // co-occurrence matrix into the lower dimensional subspace
        reduced = LocalityPreservingProjection.project(

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        try {
            File rawTermDocMatrix = 
                File.createTempFile("lra-term-document-matrix", ".dat");
            MatrixIO.writeMatrix(sparse_matrix, rawTermDocMatrix,
                                 MatrixIO.Format.SVDLIBC_SPARSE_TEXT); 
            MatrixFile mFile = new MatrixFile(
                    rawTermDocMatrix, MatrixIO.Format.SVDLIBC_SPARSE_TEXT);
            reducer.factorize(mFile, dimensions);
            return reducer.dataClasses();
        } catch (IOException ioe){
            throw new IOError(ioe);

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                                         Format format) {
        try {
            File mFile = File.createTempFile("TestSvdMatrix", "dat");
            mFile.deleteOnExit();
            MatrixIO.writeMatrix(matrix, mFile, format);
            reducer.factorize(new MatrixFile(mFile, format), 2);
        } catch (Exception ioe) {
            ioe.printStackTrace();
        }


            validateResults(reducer);

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            String transformClass = 
                properties.getProperty(MATRIX_TRANSFORM_PROPERTY);
            if (transformClass != null)
                transform = ReflectionUtil.getObjectInstance(
                        transformClass);
            MatrixFile processedSpace = super.processSpace(transform);
            System.out.printf("Matrix saved in %s as %s%n",
                              processedSpace.getFile(),
                              processedSpace.getFormat());
            wordSpace = MatrixIO.readMatrix(processedSpace.getFile(),
                                            processedSpace.getFormat());
            System.out.printf("loaded word space of %d x %d%n", 
                              wordSpace.rows(), wordSpace.columns());
        } catch (IOException ioe) {
            throw new IOError(ioe);
        }

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                LoggerUtil.verbose(
                        LOG, "transformed matrix to %s",
                        termDocumentMatrix.getAbsolutePath());
            }


            return new MatrixFile(
                    termDocumentMatrix, 
                    termDocumentMatrixBuilder.getMatrixFormat());
        } catch (IOException ioe) {
            throw new IOError(ioe);
        }

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edu.ucla.sspace.clustering.DataMatrixLinkClustering

edu.ucla.sspace.coals.Coals

edu.ucla.sspace.common.GenericTermDocumentVectorSpace

edu.ucla.sspace.esa.ExplicitSemanticAnalysis

edu.ucla.sspace.lra.LatentRelationalAnalysis

edu.ucla.sspace.lsa.LatentSemanticAnalysis

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edu.ucla.sspace.matrix.factorization.SingularValueDecompositionMatlab

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