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File OverviewDimensionsShowHidden.java
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Classes
| Class | Line # | Actions | |||
|---|---|---|---|---|---|
| OverviewDimensionsShowHidden | 31 | 59 | 18 |
Contributing tests
This file is covered by 20 tests.
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| 1 | /* | |
| 2 | * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) | |
| 3 | * Copyright (C) $$Year-Rel$$ The Jalview Authors | |
| 4 | * | |
| 5 | * This file is part of Jalview. | |
| 6 | * | |
| 7 | * Jalview is free software: you can redistribute it and/or | |
| 8 | * modify it under the terms of the GNU General Public License | |
| 9 | * as published by the Free Software Foundation, either version 3 | |
| 10 | * of the License, or (at your option) any later version. | |
| 11 | * | |
| 12 | * Jalview is distributed in the hope that it will be useful, but | |
| 13 | * WITHOUT ANY WARRANTY; without even the implied warranty | |
| 14 | * of MERCHANTABILITY or FITNESS FOR A PARTICULAR | |
| 15 | * PURPOSE. See the GNU General Public License for more details. | |
| 16 | * | |
| 17 | * You should have received a copy of the GNU General Public License | |
| 18 | * along with Jalview. If not, see <http://www.gnu.org/licenses/>. | |
| 19 | * The Jalview Authors are detailed in the 'AUTHORS' file. | |
| 20 | */ | |
| 21 | package jalview.viewmodel; | |
| 22 | ||
| 23 | import jalview.api.AlignmentColsCollectionI; | |
| 24 | import jalview.api.AlignmentRowsCollectionI; | |
| 25 | import jalview.datamodel.AlignmentI; | |
| 26 | import jalview.datamodel.AllColsCollection; | |
| 27 | import jalview.datamodel.AllRowsCollection; | |
| 28 | import jalview.datamodel.HiddenColumns; | |
| 29 | import jalview.datamodel.HiddenSequences; | |
| 30 | ||
| 31 | public class OverviewDimensionsShowHidden extends OverviewDimensions | |
| 32 | { | |
| 33 | private ViewportRanges ranges; | |
| 34 | ||
| 35 | private int xdiff; // when dragging, difference in alignment units between | |
| 36 | // start residue and original mouse click position | |
| 37 | ||
| 38 | private int ydiff; // when dragging, difference in alignment units between | |
| 39 | // start sequence and original mouse click position | |
| 40 | ||
| 41 | /** | |
| 42 | * Create an OverviewDimensions object | |
| 43 | * | |
| 44 | * @param ranges | |
| 45 | * positional properties of the viewport | |
| 46 | * @param showAnnotationPanel | |
| 47 | * true if the annotation panel is to be shown, false otherwise | |
| 48 | */ | |
| 49 | 29 |  public OverviewDimensionsShowHidden(ViewportRanges vpranges, |
| 50 | boolean showAnnotationPanel) | |
| 51 | { | |
| 52 | 29 | super(vpranges, showAnnotationPanel); |
| 53 | 29 | ranges = vpranges; |
| 54 | 29 | resetAlignmentDims(); |
| 55 | } | |
| 56 | ||
| 57 | /** | |
| 58 | * Check box dimensions and scroll positions and correct if necessary | |
| 59 | * | |
| 60 | * @param mousex | |
| 61 | * x position in overview panel | |
| 62 | * @param mousey | |
| 63 | * y position in overview panel | |
| 64 | * @param hiddenSeqs | |
| 65 | * hidden sequences | |
| 66 | * @param hiddenCols | |
| 67 | * hidden columns | |
| 68 | * @param ranges | |
| 69 | * viewport position properties | |
| 70 | */ | |
| 71 | 54 | @Override |
| 72 | public void updateViewportFromMouse(int mousex, int mousey, | |
| 73 | HiddenSequences hiddenSeqs, HiddenColumns hiddenCols) | |
| 74 | { | |
| 75 | 54 | resetAlignmentDims(); |
| 76 | ||
| 77 | // convert mousex and mousey to alignment units as well as | |
| 78 | // translating to top left corner of viewport - this is an absolute position | |
| 79 | 54 | int xAsRes = getLeftXFromCentreX(mousex, hiddenCols); |
| 80 | 54 | int yAsSeq = getTopYFromCentreY(mousey, hiddenSeqs); |
| 81 | ||
| 82 | // convert to visible positions | |
| 83 | 54 | int visXAsRes = hiddenCols.absoluteToVisibleColumn(xAsRes); |
| 84 | 54 | yAsSeq = hiddenSeqs.adjustForHiddenSeqs( |
| 85 | hiddenSeqs.findIndexWithoutHiddenSeqs(yAsSeq)); | |
| 86 | 54 | yAsSeq = Math.max(yAsSeq, 0); // -1 if before first visible sequence |
| 87 | 54 | int visYAsSeq = hiddenSeqs.findIndexWithoutHiddenSeqs(yAsSeq); |
| 88 | 54 | visYAsSeq = Math.max(visYAsSeq, 0); // -1 if before first visible sequence |
| 89 | ||
| 90 | // update viewport accordingly | |
| 91 | 54 | updateViewportFromTopLeft(visXAsRes, visYAsSeq, hiddenSeqs, hiddenCols); |
| 92 | } | |
| 93 | ||
| 94 | 3 | @Override |
| 95 | public void adjustViewportFromMouse(int mousex, int mousey, | |
| 96 | HiddenSequences hiddenSeqs, HiddenColumns hiddenCols) | |
| 97 | { | |
| 98 | 3 | resetAlignmentDims(); |
| 99 | ||
| 100 | // calculate translation in pixel terms: | |
| 101 | // get mouse location in viewport coords, add translation in viewport | |
| 102 | // coords, | |
| 103 | // convert back to pixel coords | |
| 104 | 3 | int vpx = Math.round((float) mousex * alwidth / width); |
| 105 | 3 | int visXAsRes = hiddenCols.absoluteToVisibleColumn(vpx) + xdiff; |
| 106 | ||
| 107 | 3 | int vpy = Math.round(mousey * heightRatio); |
| 108 | 3 | int visYAsRes = hiddenSeqs.findIndexWithoutHiddenSeqs(vpy) + ydiff; |
| 109 | ||
| 110 | // update viewport accordingly | |
| 111 | 3 | updateViewportFromTopLeft(visXAsRes, visYAsRes, hiddenSeqs, hiddenCols); |
| 112 | } | |
| 113 | ||
| 114 | /** | |
| 115 | * {@inheritDoc} Callers should have already called resetAlignmentDims to | |
| 116 | * refresh alwidth, alheight and width/height ratios | |
| 117 | */ | |
| 118 | 57 | @Override |
| 119 | protected void updateViewportFromTopLeft(int leftx, int topy, | |
| 120 | HiddenSequences hiddenSeqs, HiddenColumns hiddenCols) | |
| 121 | { | |
| 122 | 57 | int visXAsRes = leftx; |
| 123 | 57 | int visYAsSeq = topy; |
| 124 | ||
| 125 | 57 | if (visXAsRes < 0) |
| 126 | { | |
| 127 | 43 | visXAsRes = 0; |
| 128 | } | |
| 129 | ||
| 130 | 57 | if (visYAsSeq < 0) |
| 131 | { | |
| 132 | 0 | visYAsSeq = 0; |
| 133 | } | |
| 134 | ||
| 135 | 57 | if (ranges.isWrappedMode()) |
| 136 | { | |
| 137 | 3 | visYAsSeq = 0; // sorry, no vertical scroll when wrapped |
| 138 | } | |
| 139 | ||
| 140 | // Determine where scrollCol should be, given visXAsRes | |
| 141 | ||
| 142 | // get viewport width in residues | |
| 143 | 57 | int vpwidth = ranges.getViewportWidth(); |
| 144 | ||
| 145 | // check in case we went off the edge of the alignment | |
| 146 | 57 | int visAlignWidth = hiddenCols.absoluteToVisibleColumn(alwidth - 1); |
| 147 | 57 | if (visXAsRes + vpwidth - 1 > visAlignWidth) |
| 148 | { | |
| 149 | // went past the end of the alignment, adjust backwards | |
| 150 | ||
| 151 | // if last position was before the end of the alignment, need to update | |
| 152 | 5 | if (ranges.getEndRes() < visAlignWidth) |
| 153 | { | |
| 154 | 5 | visXAsRes = hiddenCols.absoluteToVisibleColumn(hiddenCols |
| 155 | .offsetByVisibleColumns(-(vpwidth - 1), alwidth - 1)); | |
| 156 | } | |
| 157 | else | |
| 158 | { | |
| 159 | 0 | visXAsRes = ranges.getStartRes(); |
| 160 | } | |
| 161 | } | |
| 162 | ||
| 163 | // Determine where scrollRow should be, given visYAsSeq | |
| 164 | ||
| 165 | // get viewport height in sequences | |
| 166 | 57 | int vpheight = ranges.getViewportHeight(); |
| 167 | ||
| 168 | // check in case we went off the edge of the alignment | |
| 169 | 57 | int visAlignHeight = hiddenSeqs.findIndexWithoutHiddenSeqs(alheight); |
| 170 | ||
| 171 | 57 | if (visYAsSeq + vpheight - 1 > visAlignHeight) |
| 172 | { | |
| 173 | // went past the end of the alignment, adjust backwards | |
| 174 | 3 | if (ranges.getEndSeq() < visAlignHeight) |
| 175 | { | |
| 176 | 3 | visYAsSeq = hiddenSeqs.findIndexWithoutHiddenSeqs( |
| 177 | hiddenSeqs.subtractVisibleRows(vpheight - 1, alheight - 1)); | |
| 178 | } | |
| 179 | else | |
| 180 | { | |
| 181 | 0 | visYAsSeq = ranges.getStartSeq(); |
| 182 | } | |
| 183 | } | |
| 184 | ||
| 185 | // update viewport | |
| 186 | 57 | ranges.setStartResAndSeq(visXAsRes, visYAsSeq); |
| 187 | } | |
| 188 | ||
| 189 | /** | |
| 190 | * Update the overview panel box when the associated alignment panel is | |
| 191 | * changed | |
| 192 | * | |
| 193 | * @param hiddenSeqs | |
| 194 | * hidden sequences | |
| 195 | * @param hiddenCols | |
| 196 | * hidden columns | |
| 197 | * @param ranges | |
| 198 | * viewport position properties | |
| 199 | */ | |
| 200 | 121 | @Override |
| 201 | public void setBoxPosition(HiddenSequences hiddenSeqs, | |
| 202 | HiddenColumns hiddenCols) | |
| 203 | { | |
| 204 | // work with absolute values of startRes and endRes | |
| 205 | 121 | int startRes = hiddenCols.visibleToAbsoluteColumn(ranges.getStartRes()); |
| 206 | 121 | int endRes = hiddenCols.visibleToAbsoluteColumn(ranges.getEndRes()); |
| 207 | ||
| 208 | // work with absolute values of startSeq and endSeq | |
| 209 | 121 | int startSeq = hiddenSeqs.adjustForHiddenSeqs(ranges.getStartSeq()); |
| 210 | 121 | int endSeq = hiddenSeqs.adjustForHiddenSeqs(ranges.getEndSeq()); |
| 211 | ||
| 212 | 121 | setBoxPosition(startRes, startSeq, endRes - startRes + 1, |
| 213 | endSeq - startSeq + 1); | |
| 214 | } | |
| 215 | ||
| 216 | 23 | @Override |
| 217 | public AlignmentColsCollectionI getColumns(AlignmentI al) | |
| 218 | { | |
| 219 | 23 | return new AllColsCollection(0, ranges.getAbsoluteAlignmentWidth() - 1, |
| 220 | al); | |
| 221 | } | |
| 222 | ||
| 223 | 12 | @Override |
| 224 | public AlignmentRowsCollectionI getRows(AlignmentI al) | |
| 225 | { | |
| 226 | 12 | return new AllRowsCollection(0, ranges.getAbsoluteAlignmentHeight() - 1, |
| 227 | al); | |
| 228 | } | |
| 229 | ||
| 230 | 234 | @Override |
| 231 | protected void resetAlignmentDims() | |
| 232 | { | |
| 233 | 234 | alwidth = ranges.getAbsoluteAlignmentWidth(); |
| 234 | 234 | alheight = ranges.getAbsoluteAlignmentHeight(); |
| 235 | ||
| 236 | 234 | widthRatio = (float) alwidth / width; |
| 237 | 234 | heightRatio = (float) alheight / sequencesHeight; |
| 238 | } | |
| 239 | ||
| 240 | /** | |
| 241 | * {@inheritDoc} Callers should have already called resetAlignmentDims to | |
| 242 | * refresh widthRatio | |
| 243 | */ | |
| 244 | 54 | @Override |
| 245 | protected int getLeftXFromCentreX(int mousex, HiddenColumns hidden) | |
| 246 | { | |
| 247 | 54 | int vpx = Math.round((float) mousex * alwidth / width); |
| 248 | 54 | return hidden.offsetByVisibleColumns(-ranges.getViewportWidth() / 2, |
| 249 | vpx); | |
| 250 | } | |
| 251 | ||
| 252 | /** | |
| 253 | * {@inheritDoc} Callers should have already called resetAlignmentDims to | |
| 254 | * refresh heightRatio | |
| 255 | */ | |
| 256 | 54 | @Override |
| 257 | protected int getTopYFromCentreY(int mousey, HiddenSequences hidden) | |
| 258 | { | |
| 259 | 54 | int vpy = Math.round(mousey * heightRatio); |
| 260 | 54 | return hidden.subtractVisibleRows(ranges.getViewportHeight() / 2, vpy); |
| 261 | } | |
| 262 | ||
| 263 | 3 | @Override |
| 264 | public void setDragPoint(int x, int y, HiddenSequences hiddenSeqs, | |
| 265 | HiddenColumns hiddenCols) | |
| 266 | { | |
| 267 | 3 | resetAlignmentDims(); |
| 268 | ||
| 269 | // get alignment position of x and box (can get directly from vpranges) and | |
| 270 | // calculate difference between the positions | |
| 271 | 3 | int vpx = Math.round(x * widthRatio); |
| 272 | 3 | int vpy = Math.round(y * heightRatio); |
| 273 | ||
| 274 | 3 | xdiff = ranges.getStartRes() - hiddenCols.absoluteToVisibleColumn(vpx); |
| 275 | 3 | ydiff = ranges.getStartSeq() |
| 276 | - hiddenSeqs.findIndexWithoutHiddenSeqs(vpy); | |
| 277 | } | |
| 278 | ||
| 279 | } |