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Searched refs:seqIndex (Results 1 – 25 of 249) sorted by relevance

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/dports/games/libretro-scummvm/scummvm-7b1e929/engines/mads/
H A Dsequence.cpp103 uint seqIndex = 0; in add() local
104 while ((seqIndex < _entries.size()) && _entries[seqIndex]._active) in add()
105 ++seqIndex; in add()
106 if (seqIndex == _entries.size()) in add()
137 _entries[seqIndex]._flags = 0; in add()
144 return seqIndex; in add()
149 uint seqIndex; in addTimer() local
150 for (seqIndex = 0; seqIndex < _entries.size(); ++seqIndex) { in addTimer()
169 return seqIndex; in addTimer()
226 remove(seqIndex); in loadSprites()
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H A Dsequence.h105 void remove(int seqIndex);
107 void setSpriteSlot(int seqIndex, SpriteSlot &spriteSlot);
108 bool loadSprites(int seqIndex);
111 void setAnimRange(int seqIndex, int startVal, int endVal);
113 void setDepth(int seqIndex, int depth);
114 void setPosition(int seqIndex, const Common::Point &pt);
125 void setMsgLayout(int seqIndex);
126 void setDone(int seqIndex);
127 void setMotion(int seqIndex, int flags, int deltaX, int deltaY);
H A Dhotspots.cpp58 int DynamicHotspots::add(int descId, int verbId, byte syntax, int seqIndex, const Common::Rect &bou… in add() argument
68 _entries[idx]._seqIndex = seqIndex; in add()
82 if (seqIndex >= 0) { in add()
83 _vm->_game->_scene._sequences[seqIndex]._dynamicHotspotIndex = idx; in add()
90 int DynamicHotspots::add(int descId, int verbId, int seqIndex, const Common::Rect &bounds) { in add() argument
100 _entries[idx]._seqIndex = seqIndex; in add()
112 if (seqIndex >= 0) in add()
113 _vm->_game->_scene._sequences[seqIndex]._dynamicHotspotIndex = idx; in add()
/dports/games/scummvm/scummvm-2.5.1/engines/mads/
H A Dsequence.cpp103 uint seqIndex = 0; in add() local
104 while ((seqIndex < _entries.size()) && _entries[seqIndex]._active) in add()
105 ++seqIndex; in add()
106 if (seqIndex == _entries.size()) in add()
137 _entries[seqIndex]._flags = 0; in add()
144 return seqIndex; in add()
149 uint seqIndex; in addTimer() local
150 for (seqIndex = 0; seqIndex < _entries.size(); ++seqIndex) { in addTimer()
169 return seqIndex; in addTimer()
226 remove(seqIndex); in loadSprites()
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H A Dsequence.h105 void remove(int seqIndex);
107 void setSpriteSlot(int seqIndex, SpriteSlot &spriteSlot);
108 bool loadSprites(int seqIndex);
111 void setAnimRange(int seqIndex, int startVal, int endVal);
113 void setDepth(int seqIndex, int depth);
114 void setPosition(int seqIndex, const Common::Point &pt);
125 void setMsgLayout(int seqIndex);
126 void setDone(int seqIndex);
127 void setMotion(int seqIndex, int flags, int deltaX, int deltaY);
H A Dhotspots.cpp58 int DynamicHotspots::add(int descId, int verbId, byte syntax, int seqIndex, const Common::Rect &bou… in add() argument
68 _entries[idx]._seqIndex = seqIndex; in add()
82 if (seqIndex >= 0) { in add()
83 _vm->_game->_scene._sequences[seqIndex]._dynamicHotspotIndex = idx; in add()
90 int DynamicHotspots::add(int descId, int verbId, int seqIndex, const Common::Rect &bounds) { in add() argument
100 _entries[idx]._seqIndex = seqIndex; in add()
112 if (seqIndex >= 0) in add()
113 _vm->_game->_scene._sequences[seqIndex]._dynamicHotspotIndex = idx; in add()
/dports/biology/jalview/jalview/test/jalview/gui/
H A DSeqPanelTest.java248 assertEquals(pos.seqIndex, 0); in testFindMousePosition_unwrapped()
303 assertEquals(pos.seqIndex, -1); in testFindMousePosition_wrapped_annotations()
313 assertEquals(pos.seqIndex, 0); in testFindMousePosition_wrapped_annotations()
323 assertEquals(pos.seqIndex, 0); in testFindMousePosition_wrapped_annotations()
333 assertEquals(pos.seqIndex, 1); in testFindMousePosition_wrapped_annotations()
343 assertEquals(pos.seqIndex, 1); in testFindMousePosition_wrapped_annotations()
429 assertEquals(pos.seqIndex, 0); in testFindMousePosition_wrapped_annotations()
488 assertEquals(pos.seqIndex, 0); in testFindMousePosition_wrapped_scaleAbove()
498 assertEquals(pos.seqIndex, 0); in testFindMousePosition_wrapped_scaleAbove()
508 assertEquals(pos.seqIndex, 1); in testFindMousePosition_wrapped_scaleAbove()
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/dports/biology/ncbi-toolkit/ncbi/biostruc/cdd/
H A Dcddposutil.c682 for(seqIndex = 0; seqIndex < numseq; seqIndex++) { in CddposComputeExtents()
784 for (seqIndex = 0; seqIndex <= numseq; seqIndex++) { in CddposComputeSequenceWeights()
801 for (seqIndex = 0; seqIndex <= numseq; seqIndex++) { in CddposComputeSequenceWeights()
810 for(seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in CddposComputeSequenceWeights()
821 for(seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in CddposComputeSequenceWeights()
830 for (seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in CddposComputeSequenceWeights()
835 for (seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in CddposComputeSequenceWeights()
841 for (seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in CddposComputeSequenceWeights()
2312 for(seqIndex = 1; seqIndex < numSeqs; seqIndex++) { in CddposProcessAlignment()
2329 for(seqIndex = 1; seqIndex < numSeqs; seqIndex++) { in CddposProcessAlignment()
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/dports/biology/ncbi-toolkit/ncbi/tools/
H A Dposit.c1245 for(seqIndex = 0; seqIndex < numseq; seqIndex++) { in posComputeExtents()
1355 for (seqIndex = 0; seqIndex <= numseq; seqIndex++) { in posComputeSequenceWeights()
1379 for (seqIndex = 0; seqIndex <= numseq; seqIndex++) { in posComputeSequenceWeights()
1391 for(seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in posComputeSequenceWeights()
1409 for(seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in posComputeSequenceWeights()
1426 for (seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in posComputeSequenceWeights()
1436 for (seqIndex = 0; seqIndex < numParticipating; seqIndex++) { in posComputeSequenceWeights()
3151 for (seqIndex = 0; seqIndex < numSeqs; seqIndex++) in posPreprocessAlignment()
3172 for(seqIndex = 0; seqIndex < numSeqs; seqIndex++) { in findQuery()
3336 for(seqIndex = 1; seqIndex < numSeqs; seqIndex++) { in posProcessAlignment()
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/dports/math/jts/jts-jts-1.18.1/modules/core/src/main/java/org/locationtech/jts/awt/
H A DShapeReader.java93 int seqIndex = 0; in read() local
94 while (seqIndex < pathPtSeq.size()) { in read()
97 Coordinate[] pts = (Coordinate[]) pathPtSeq.get(seqIndex); in read()
99 seqIndex++; in read()
103 while (seqIndex < pathPtSeq.size() && isHole((Coordinate[]) pathPtSeq.get(seqIndex))) { in read()
104 Coordinate[] holePts = (Coordinate[]) pathPtSeq.get(seqIndex); in read()
107 seqIndex++; in read()
/dports/lang/mono/mono-5.10.1.57/mcs/class/referencesource/System.ServiceModel/System/ServiceModel/Dispatcher/
H A DQuerySetOp.cs21 …for (int seqIndex = sequences.basePtr, ordinalIndex = ordinals.basePtr; seqIndex <= sequences.endP… in Eval()
23 NodeSequence sequence = sequenceBuffer[seqIndex].Sequence; in Eval()
98 …for (int seqIndex = sequences.basePtr, resultIndex = results.basePtr; seqIndex <= sequences.endPtr… in Eval()
100 NodeSequence sourceSequence = sequenceBuffer[seqIndex].Sequence; in Eval()
118 context.ReplaceSequenceAt(seqIndex, sequenceBuilder.Sequence); in Eval()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/cn3d/
H A Dblock_multiple_alignment.cpp291 int seqIndex; in GetCharacterTraitsAt() local
297 *character = (seqIndex >= 0) ? sequence->sequenceString[seqIndex] : '~'; in GetCharacterTraitsAt()
339 if (seqIndex >= 0) in GetCharacterTraitsAt()
355 if (showGeometryViolations && seqIndex >= 0 && geometryViolations[row][seqIndex]) { in GetCharacterTraitsAt()
552 if ((int)seqIndex >= range->from && (int)seqIndex <= range->to) { in GetBlock()
1767 if ((int)seqIndex >= range->from && (int)seqIndex <= range->to) { in GetAlignmentIndex()
1842 int seqIndex = -1; in GetIndexAt() local
1856 seqIndex = -1; in GetIndexAt()
1869 seqIndex = -1; in GetIndexAt()
1872 if (seqIndex < range->from || seqIndex > range->to) seqIndex = -1; in GetIndexAt()
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H A Dblock_multiple_alignment.hpp88 bool IsAligned(unsigned int row, unsigned int seqIndex) const;
91 bool IsAligned(const Sequence *sequence, unsigned int seqIndex) const in IsAligned()
95 return IsAligned(row, seqIndex); in IsAligned()
116 const Vector * GetAlignmentColor(const Sequence *sequence, unsigned int seqIndex,
118 const Vector * GetAlignmentColor(unsigned int row, unsigned int seqIndex,
145 …int GetAlignmentIndex(unsigned int row, unsigned int seqIndex, eUnalignedJustification justificati…
273 const Block * GetBlock(unsigned int row, unsigned int seqIndex) const;
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/structure/bma_refine/
H A DBMAUtils.cpp74 if (seqIndex) { in BEGIN_SCOPE()
75 *seqIndex = (result) ? dummySeqIndex : BMA::eUndefined; in BEGIN_SCOPE()
88 unsigned int seqIndex; in GetCharacterForColumn() local
89 return GetCharacterAndIndexForColumn(bma, alignmentIndex, row, residue, &seqIndex); in GetCharacterForColumn()
177 unsigned int seqIndex = 0, alignmentIndex = 0; in MapAlignmentIndexToSeqIndex() local
201 aI2sI[alignmentIndex] = seqIndex; in MapAlignmentIndexToSeqIndex()
298 unsigned int seqIndex, masterSeqIndex, alphabetSize; in PrintPSSMForRow() local
368 oss << setw(4) << seqIndex+1 << " slave residue "; in PrintPSSMForRow()
447 unsigned int alphabetSize, blockIndex, seqIndex, masterSeqIndex, nRows, row; in PrintPSSMForColumn() local
492 if (row == 0) masterSeqIndex = seqIndex; in PrintPSSMForColumn()
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/dports/biology/artemis/artemis-17.0.1-11-g3e43d27e/uk/ac/sanger/artemis/io/
H A DIndexFastaStream.java162 public void setContigByIndex(int seqIndex) in setContigByIndex() argument
168 len = getLengthByIndex(seqIndex); in setContigByIndex()
169 contig = getContigByIndex(seqIndex); in setContigByIndex()
212 private int getLengthByIndex(int seqIndex) in getLengthByIndex() argument
219 if(i == seqIndex) in getLengthByIndex()
233 private String getContigByIndex(int seqIndex) in getContigByIndex() argument
240 if(i == seqIndex) in getContigByIndex()
266 public ReferenceSequence getReferenceSequence(int seqIndex) in getReferenceSequence() argument
273 if(i == seqIndex) in getReferenceSequence()
/dports/audio/mous/mous-2.0.1/sdk/util/
H A DPlaylist.h216 int seqIndex = (m_Mode == PlaylistMode::Shuffle in Move() local
220 const auto iter = std::find(oldPos.begin(), oldPos.end(), seqIndex); in Move()
222 seqIndex = realNewPos + (iter - oldPos.begin()); in Move()
224 int tmp = seqIndex; in Move()
226 if (oldPos[i] < seqIndex) in Move()
233 seqIndex = tmp; in Move()
236 assert(seqIndex >= 0 && (size_t)seqIndex < m_ItemQueue.size()); in Move()
240 MOUS_FIND(m_SeqShuffleQueue, seqIndex) - m_SeqShuffleQueue.begin() : seqIndex; in Move()
/dports/biology/pbbam/pbbam-0.18.0/src/
H A DIndexedFastaReader.cpp113 size_t seqIndex = 0; in ReferenceSubsequence() local
127 subseq.insert(seqIndex, opLength, '-'); in ReferenceSubsequence()
128 seqIndex += opLength; in ReferenceSubsequence()
138 subseq.insert(seqIndex, opLength, '-'); in ReferenceSubsequence()
141 subseq.insert(seqIndex, opLength, '*'); in ReferenceSubsequence()
145 seqIndex += opLength; in ReferenceSubsequence()
/dports/lang/micropython/micropython-1.17/ports/mimxrt/hal/
H A Dflexspi_nor_flash.c59 flashXfer.seqIndex = NOR_CMD_LUT_SEQ_IDX_WRITEENABLE; in flexspi_nor_write_enable()
78 flashXfer.seqIndex = NOR_CMD_LUT_SEQ_IDX_READSTATUSREG; in flexspi_nor_wait_bus_busy()
124 flashXfer.seqIndex = NOR_CMD_LUT_SEQ_IDX_WRITESTATUSREG; in flexspi_nor_enable_quad_mode()
155 flashXfer.seqIndex = NOR_CMD_LUT_SEQ_IDX_ERASESECTOR; in flexspi_nor_flash_erase_sector()
186 flashXfer.seqIndex = NOR_CMD_LUT_SEQ_IDX_PAGEPROGRAM_QUAD; in flexspi_nor_flash_page_program()
210 flashXfer.seqIndex = NOR_CMD_LUT_SEQ_IDX_READID; in flexspi_nor_get_vendor_id()
H A Dflexspi_hyper_flash.c69 flashXfer.seqIndex = HYPERFLASH_CMD_LUT_SEQ_IDX_READDATA; in flexspi_nor_hyperbus_read()
86 flashXfer.seqIndex = HYPERFLASH_CMD_LUT_SEQ_IDX_WRITEDATA; in flexspi_nor_hyperbus_write()
104 flashXfer.seqIndex = HYPERFLASH_CMD_LUT_SEQ_IDX_WRITEENABLE; in flexspi_nor_write_enable()
123 flashXfer.seqIndex = HYPERFLASH_CMD_LUT_SEQ_IDX_READSTATUS; in flexspi_nor_wait_bus_busy()
165 flashXfer.seqIndex = HYPERFLASH_CMD_LUT_SEQ_IDX_ERASESECTOR; in flexspi_nor_flash_erase_sector()
197 flashXfer.seqIndex = HYPERFLASH_CMD_LUT_SEQ_IDX_PAGEPROGRAM; in flexspi_nor_flash_page_program()
/dports/biology/emboss/EMBOSS-6.6.0/jemboss/org/emboss/jemboss/editor/
H A DSequenceReader.java286 Hashtable seqIndex = new Hashtable(); in readMSFFile() local
315 seqIndex.put(name,new Integer(num)); in readMSFFile()
330 if(!seqIndex.containsKey(name)) in readMSFFile()
339 int seqInd = ((Integer)seqIndex.get(name)).intValue(); in readMSFFile()
374 Hashtable seqIndex = new Hashtable(); in readClustalFile() local
389 if(!seqIndex.containsKey(name)) in readClustalFile()
391 seqIndex.put(name,new Integer(num)); in readClustalFile()
401 int seqInd = ((Integer)seqIndex.get(name)).intValue(); in readClustalFile()
/dports/sysutils/siegfried/siegfried-1.9.1/vendor/github.com/richardlehane/match/fwac/
H A Dfwac.go153 seqIndex int // index within all the Seqs in the Wac member
465 …if o.subIndex == 0 || (precons[o.seqIndex][o.subIndex-1] != 0 && offset-int64(o.length) >= precons…
466 if precons[o.seqIndex][o.subIndex] == 0 {
467 precons[o.seqIndex][o.subIndex] = offset
469 …results <- Result{Index: [2]int{o.seqIndex, o.subIndex}, Offset: offset - int64(o.length), Length:…
513 …if o.subIndex == 0 || (precons[o.seqIndex][o.subIndex-1] != 0 && offset-int64(o.length) >= precons…
514 if precons[o.seqIndex][o.subIndex] == 0 {
515 precons[o.seqIndex][o.subIndex] = offset
517 …results <- Result{Index: [2]int{o.seqIndex, o.subIndex}, Offset: offset - int64(o.length), Length:…
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/structure/cd_utils/
H A DcuCdCore.cpp233 int count = 0, seqIndex = -1; in GetNumRowsWithSequences() local
237 if (seqIndex >= 0) { in GetNumRowsWithSequences()
320 int seqIndex = -1; in GetSeqIndexForRowIndex() local
324 return seqIndex; in GetSeqIndexForRowIndex()
330 return seqIndex; in GetSeqIndexForRowIndex()
684 if (seqIndex >= 0 && seqIndex < GetNumSequences() && IsSetSequences()) { in GetSeqEntryForIndex()
706 if (seqIndex >= 0 && seqIndex < GetNumSequences() && IsSetSequences()) { in GetBioseqForIndex()
1271 int seqIndex = -1; in GetRowsForMmdbId() local
1281 if (seqIndex > 0) { in GetRowsForMmdbId()
1296 int seqIndex = -1; in GetRowsWithMmdbId() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/structure/struct_util/
H A Dsu_block_multiple_alignment.cpp288 unsigned int seqIndex; in GetCharacterAt() local
294 *character = (seqIndex != eUndefined) ? sequence->m_sequenceString[seqIndex] : '~'; in GetCharacterAt()
332 const Block *block = GetBlock(row, seqIndex); in IsAligned()
349 if ((int)seqIndex >= range->from && (int)seqIndex <= range->to) in GetBlock()
362 if ((int)seqIndex >= range->from && (int)seqIndex <= range->to) { in GetBlock()
1324 if ((int)seqIndex >= range->from && (int)seqIndex <= range->to) { in GetAlignmentIndex()
1399 seqIndex = range->from + blockColumn; in GetIndexAt()
1417 seqIndex = range->from + blockColumn; in GetIndexAt()
1424 if ((int)seqIndex < range->from || (int)seqIndex > range->to) in GetIndexAt()
1425 seqIndex = BlockMultipleAlignment::eUndefined; in GetIndexAt()
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/dports/biology/jalview/jalview/src/jalview/gui/
H A DSeqPanel.java104 final int seqIndex; field in SeqPanel.MousePos
116 seqIndex = seq; in MousePos()
133 boolean b = (column == o.column && seqIndex == o.seqIndex in equals()
268 int seqIndex = -1; in findMousePosition() local
301 seqIndex = alignmentHeight - 1; in findMousePosition()
320 seqIndex = Math.min(seqIndex, ranges.getEndSeq()); in findMousePosition()
828 int seq = pos.seqIndex; in mousePressed()
1269 String seqno = seqIndex == -1 ? "" : " " + (seqIndex + 1); in setStatusMessage()
2188 final int seq = pos.seqIndex; in doMousePressedDefineMode()
2298 final int seq = pos.seqIndex; in showPopupMenu()
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/dports/biology/jalview/jalview/src/jalview/renderer/
H A DOverviewRenderer.java108 int seqIndex = 0; in draw() local
131 int endRow = Math.min(Math.round((seqIndex + 1) * pixelsPerSeq) - 1, in draw()
182 seqIndex++; in draw()
323 int seqIndex = 0; in buildHiddenImage() local
333 int endRow = Math.min(Math.round((seqIndex + 1) * pixelsPerSeq) - 1, in buildHiddenImage()
343 seqIndex++; in buildHiddenImage()

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