[Demonstration 1]

[Buggy Method]
public void deleteBlock() {
    if (currentIndex != -1) {
        operators[currentIndex] = ' ';
        currentIndex--;
    }
}

[Buggy Hunk]
operators[currentIndex] = ' ';

[Patch]
blocks[currentIndex].setEmpty(true);

[Demonstration 2]

[Buggy Method]
private TIntSet combineBoundaries() {
    if (sobelScores == null) {
        sobelScores = createSobelScores();
        //MiscDebug.writeImage(sobelScores,
        //    "_" + ts + "_canny_blurred_");
        //MiscDebug.writeImage(cannyEdges, "_" + ts + "_canny_");
    }
    /*
        using the level set region boundaries as contours to complete
        the edges from the canny edges of L and C from LCH.

        -- first applying a filter that is the fraction of region
           boundary points which have a canny edge pixel to filter the
           mser regions list.
        -- then finding the contiguous sets of all matched region points
        and the sets of all unmatched points from those same regions
        (where matched means that the region pixel coordinates
        have canny edge pixel values > 0).
        -- then finding the paths in the unmatched points that complete
        gaps between the matched segments.
        */
    // below this removes:
    float mLimit = 0.4001f;
    // maximum number of contiguous pixels that are not already canny
    //   edge points
    int maxGapSize = 16;
    PerimeterFinder2 finder = new PerimeterFinder2();
    TIntSet allEdgePoints = new TIntHashSet();
    TIntSet unmatchedPoints = new TIntHashSet();
    TIntObjectMap<TIntSet> unmatchedRMap = new TIntObjectHashMap<TIntSet>();
    TIntSet rmvdImgBorders = new TIntHashSet();
    double tt0 = System.currentTimeMillis();
    for (int rListIdx = 0; rListIdx < regions.size(); ++rListIdx) {
        Region r = regions.get(rListIdx);
        TIntSet points = r.getAcc(clrImg.getWidth());
        TIntSet embedded = new TIntHashSet();
        TIntSet outerBorder = new TIntHashSet();
        finder.extractBorder2(points, embedded, outerBorder, clrImg.getWidth());
        TIntSet border2 = removeImageBorder(outerBorder, rmvdImgBorders, clrImg.getWidth(), clrImg.getHeight());
        TIntSet matched = new TIntHashSet();
        TIntSet unmatched = new TIntHashSet();
        double[] scoreAndMatch = calcAvgScore(border2, sobelScores, matched, unmatched, clrImg.getWidth());
        double matchFraction = scoreAndMatch[1] / (double) border2.size();
        /*
            System.out.format(" rIdx=%d score=%.3f "
                + " border2.n=%d nmf=%.3f  m.n=%d um.n=%d\n",
                rListIdx, (float)scoreAndMatch[0],
                border2.size(),
                (float)matchFraction, matched.size(), unmatched.size());
            */
        boolean doNotAdd = (matchFraction < mLimit) || ((int) scoreAndMatch[1] == 0);
        //Image tmpImg = sobelScores.copyToColorGreyscale();
        //ImageIOHelper.addCurveToImage(border2, tmpImg, 0, 255, 0, 0);
        //MiscDebug.writeImage(tmpImg, "_r_" + rListIdx);
        if (doNotAdd) {
            continue;
        }
        //Image tmpImg = sobelScores.copyToColorGreyscale();
        //ImageIOHelper.addCurveToImage(border2, tmpImg, 0, 255, 0, 0);
        //MiscDebug.writeImage(tmpImg, "_r_" + rListIdx);
        /*
            to find the points in border2 which are not in the canny edges, but
            are the missing contour points of an object:

            -- separating the border2 points which are matched to canny edge
                 points from those which do not have a canny edge pixel
                 (done in steps above)
            -- for the matched points, putting them all in allPoints and
                putting unmatched into unmatchedSet.
            -- when this block is complete,
               -- will find the contiguous matched segments.
               -- will find the unmatchedSet points which are adjacent
                  to one of the matched.
                  these are the endpoints in the unmatched which may be path
                  endpoints between matched segments or they might not be.
               -- will search through unmatched points from the starting
                  endpoints to the other endpoints
                  and keep paths that are shorter than
                  maxGapSize
            */
        allEdgePoints.addAll(matched);
        unmatchedPoints.addAll(unmatched);
        unmatchedRMap.put(rListIdx, unmatched);
        //Image tmpImg = sobelScores.copyToColorGreyscale();
        //ImageIOHelper.addCurveToImage(unmatched, tmpImg, 0, 255, 0, 0);
        //MiscDebug.writeImage(tmpImg, "_u_" + rListIdx);
    }
    double tt1 = System.currentTimeMillis();
    if (debug) {
        System.out.println(((tt1 - tt0) / 1000.) + " sec for region filter. " + unmatchedRMap.size() + " regions added");
    }
    /*
        if (debug) {
            Image tmpImg = clrImg.copyToGreyscale2().copyToColorGreyscale();
            ImageIOHelper.addCurveToImage(allEdgePoints, tmpImg, 0, 255, 0, 0);
            MiscDebug.writeImage(tmpImg, "_" + ts + "_matched_");
            tmpImg = clrImg.copyToGreyscale2().copyToColorGreyscale();
            ImageIOHelper.addCurveToImage(unmatchedPoints, tmpImg, 0, 255, 0, 0);
            MiscDebug.writeImage(tmpImg, "_" + ts + "_unmatched_");
            //tmpImg = clrImg.copyToGreyscale2().copyToColorGreyscale();
            //ImageIOHelper.addCurveToImage(rmvdImgBorders, tmpImg, 0, 255, 0, 0);
            //MiscDebug.writeImage(tmpImg, "_" + ts + "_rmvdBounds_");
        }
        */
    //make contiguous connected segments of matched set.
    ConnectedPointsFinder finder2 = new ConnectedPointsFinder(clrImg.getWidth());
    finder2.setMinimumNumberInCluster(1);
    finder2.findConnectedPointGroups(allEdgePoints);
    final int n2 = finder2.getNumberOfGroups();
    System.out.println("number of matched segments=" + n2);
    // key = matched point, value = finder2 index of point
    TIntIntMap mpIdxMap = finder2.createPointIndexMap();
    //   sections in unmatchedRMap are single width segments
    //   .  when a segment is adjacent to 2 matched segments (from finder2),
    //      that unmatched segment can be added.
    //      note that multiple regions may have adjacent arcs in
    //      an unmatched area, so to thin to the best path,
    //      could either take the best
    //      unmatched segment that connects those 2 matched segments
    //      for that area, or could let the "assignTheUnassigned"
    //      kmeans-style method handle this thinning.
    //      choosing the later since it is needed for the matched
    //      points already.
    //      NOTE: the unmatched dist between endpoints AND the number
    //            of pixels in the unmatched segment still need to remain under
    //            the maxGapSize, helping to avoid adding the region
    //            portions which are not edges.
    TIntObjectMap<List<TIntSet>> unmatchedRSegments = extractontiguousSegments(unmatchedRMap);
    TIntObjectIterator<List<TIntSet>> iter10 = unmatchedRSegments.iterator();
    for (int i = 0; i < unmatchedRSegments.size(); ++i) {
        iter10.advance();
        int rIdx = iter10.key();
        List<TIntSet> segmentList = iter10.value();
        for (TIntSet segment : segmentList) {
            if (segment.size() > maxGapSize) {
                continue;
            }
            // key = pixIdx, value=edge segment indexes that key
            //       pixel is adjacent to
            // NOTE, that for pixels adjacent to an image border pixel,
            //       that is one off from image border, a fake edge
            //       is added to the values and those fake edges are
            //       negative numbers starting at -1
            TIntObjectMap<TIntList> umEPIdxMap = findEndpoints(segment, mpIdxMap, clrImg.getWidth(), clrImg.getHeight());
            assert (!umEPIdxMap.isEmpty());
            // for any 2 entries in umEPIdxMap
            //   if the set difference operation results in 2 edge
            //      indexes, can add this segment to allEdgePoints.
            TIntSet posEdgeIdxs = new TIntHashSet(3);
            boolean connectsToBorder = false;
            TIntObjectIterator<TIntList> iter11 = umEPIdxMap.iterator();
            for (int ii = 0; ii < umEPIdxMap.size(); ++ii) {
                iter11.advance();
                TIntList eIdxs = iter11.value();
                for (int jj = 0; jj < eIdxs.size(); ++jj) {
                    int eIdx = eIdxs.get(jj);
                    if (eIdx < 0) {
                        connectsToBorder = true;
                    } else {
                        posEdgeIdxs.add(eIdx);
                    }
                }
            }
            if (posEdgeIdxs.size() >= 1) {
                allEdgePoints.addAll(segment);
            }
        }
    }
    int[] dxs = Misc.dx8;
    int[] dys = Misc.dy8;
    int w = clrImg.getWidth();
    int h = clrImg.getHeight();
    //add back any points in rmvdImgBorders adjacent to allEdgePoints
    TIntSet addRmvd = new TIntHashSet();
    TIntIterator iter = rmvdImgBorders.iterator();
    while (iter.hasNext()) {
        int pixIdx = iter.next();
        int y = pixIdx / w;
        int x = pixIdx - (y * w);
        //System.out.println(" imgB xy=" + x + ", " + y);
        for (int k = 0; k < dxs.length; ++k) {
            int x2 = x + dxs[k];
            int y2 = y + dys[k];
            if (x2 < 0 || y2 < 0 || (x2 >= w) || (y2 >= w)) {
                continue;
            }
            int pixIdx2 = (y2 * w) + x2;
            if (allEdgePoints.contains(pixIdx2)) {
                addRmvd.add(pixIdx);
                break;
            }
        }
    }
    allEdgePoints.addAll(addRmvd);
    if (debug) {
        Image tmp = clrImg.copyToGreyscale2().copyToColorGreyscale();
        ImageIOHelper.addCurveToImage(allEdgePoints, tmp, 0, 255, 0, 0);
        MiscDebug.writeImage(tmp, "_" + ts + "_boundaries0_");
    }
    return allEdgePoints;
}

[Buggy Hunk]
clrImg.getWidth());

[Patch]
clrImg.getWidth(), clrImg.getHeight());

[Demonstration 3]

[Buggy Method]
public void drawAll(Graphics g) {
    for (int i = 1; i < map.length; i++) {
        for (int j = 0; j < map[i].length; j++) {
            if (map[i][j] != null) {
                ((map[i][j]).get(0)).draw(g);
            }
        }
    }
}

[Buggy Hunk]
for(int i = 1; i < map.length; i++)

[Patch]
for(int i = 0; i < map.length; i++)