Examples with BooleanArray uk.ac.sussex.gdsc.core.utils.BooleanArray used on opensource projects

Example 1 with BooleanArray

use of uk.ac.sussex.gdsc.core.utils.BooleanArray in project GDSC-SMLM by aherbert.

the class FailCountManager method loadData.

/**
 * Load the data from a file.
 */
private void loadData() {
    final String filename = ImageJUtils.getFilename("Fail_count_data_filename", settings.getFilename());
    if (filename == null) {
        return;
    }
    settings.setFilename(filename);
    final LocalList<FailCountData> countData = new LocalList<>();
    try (BufferedReader br = Files.newBufferedReader(Paths.get(filename))) {
        final Pattern pattern = Pattern.compile("[\t, ]+");
        // Ignore the first line
        String line = br.readLine();
        final BooleanArray array = new BooleanArray(100);
        int lastId = 0;
        int lastCandidate = 0;
        while ((line = br.readLine()) != null) {
            final String[] data = pattern.split(line);
            if (data.length != 3) {
                throw new IOException("Require 3 fields in the data");
            }
            final int id = Integer.parseInt(data[0]);
            if (id < 1) {
                throw new IOException("ID must be strictly positive");
            }
            final int candidate = Integer.parseInt(data[1]);
            if (candidate < 1) {
                throw new IOException("Candidate must be strictly positive");
            }
            final boolean ok = guessStatus(data[2]);
            if (lastId != id) {
                if (array.size() > 0) {
                    countData.add(new FailCountData(lastId, array.toArray()));
                    array.clear();
                }
                if (candidate != 1) {
                    throw new IOException("Candidate must start at 1");
                }
                lastId = id;
                // Ensure continuous
                lastCandidate = candidate - 1;
            }
            // Require continuous sequence
            if (candidate - lastCandidate == 1) {
                array.add(ok);
                lastCandidate = candidate;
            } else {
                // Make impossible to add any more for this ID
                lastCandidate = -1;
            }
        }
        // Final ID
        if (array.size() > 0) {
            countData.add(new FailCountData(lastId, array.toArray()));
        }
        IJ.showMessage(TITLE, "Loaded " + TextUtils.pleural(countData.size(), "sequence"));
        failCountDataRef.set(countData);
    } catch (final NumberFormatException | IOException ex) {
        IJ.error(TITLE, "Failed to load data:\n" + ex.getMessage());
    }
}