| /dports/biology/vcflib/vcflib-1.0.2/smithwaterman/ |
| H A D | smithwaterman.cpp | 195 unsigned int referencePos; in main() local
210 bsw.Align(referencePos, cigar, reference, query, hr); in main()
217 sw.Align(referencePos, cigar, reference, query); in main()
221 sw.Align(referencePos, cigar, reference, query); in main()
230 printf("%s %3u %f %s\n", cigar.c_str(), referencePos, bestScore, (alignedReverse ? "-" : "+")); in main()
269 string gapped_ref = string(reference).substr(referencePos, alignmentLength); in main()
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| /dports/biology/freebayes/freebayes-1.3.5/vcflib/smithwaterman/ |
| H A D | smithwaterman.cpp | 195 unsigned int referencePos; in main() local
210 bsw.Align(referencePos, cigar, reference, query, hr); in main()
217 sw.Align(referencePos, cigar, reference, query); in main()
221 sw.Align(referencePos, cigar, reference, query); in main()
230 printf("%s %3u %f %s\n", cigar.c_str(), referencePos, bestScore, (alignedReverse ? "-" : "+")); in main()
269 string gapped_ref = string(reference).substr(referencePos, alignmentLength); in main()
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| /dports/biology/smithwaterman/smithwaterman-2610e259611ae4cde8f03c72499d28f03f6d38a7/ |
| H A D | smithwaterman.cpp | 195 unsigned int referencePos; in main() local
210 bsw.Align(referencePos, cigar, reference, query, hr); in main()
217 sw.Align(referencePos, cigar, reference, query); in main()
221 sw.Align(referencePos, cigar, reference, query); in main()
230 printf("%s %3u %f %s\n", cigar.c_str(), referencePos, bestScore, (alignedReverse ? "-" : "+")); in main()
269 string gapped_ref = string(reference).substr(referencePos, alignmentLength); in main()
|
| /dports/editors/nedit/nedit-5.7/source/ |
| H A D | textDrag.c | 57 static int findRelativeLineStart(textBuffer *buf, int referencePos,
183 int referenceLine, referencePos, tempStart, tempEnd, origSelLen; in BlockDragSelection() local
306 referencePos = modRangeStart; in BlockDragSelection()
308 referencePos = textD->firstChar; in BlockDragSelection()
314 insLineStart = findRelativeLineStart(tempBuf, referencePos - tempStart, in BlockDragSelection()
555 static int findRelativeLineStart(textBuffer *buf, int referencePos, in findRelativeLineStart() argument
559 return BufCountBackwardNLines(buf, referencePos, in findRelativeLineStart()
562 return BufCountForwardNLines(buf, referencePos, in findRelativeLineStart()
564 return BufStartOfLine(buf, referencePos); in findRelativeLineStart()
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| /dports/biology/vcflib/vcflib-1.0.2/src/ |
| H A D | vcfremap.cpp | 205 unsigned int referencePos; in main() local
220 sw.Align(referencePos, cigar, reference, alternateQuery); in main()
228 string ref = reference.substr(referencePos); in main()
229 positionDiffs.push_back(referencePos); // TODO this... is borked in main()
|
| H A D | vcfleftalign.cpp | 169 unsigned int referencePos; in getAlignment() local
171 sw.Align(referencePos, cigar, ref, alt); in getAlignment()
172 alignments.push_back(AltAlignment(referencePos, alt, cigar)); in getAlignment()
|
| H A D | Variant.cpp | 2123 unsigned int referencePos; in parsedAlternates() local
2149 sw.Align(referencePos, cigar, reference_M, alternateQuery_M); in parsedAlternates()
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib-temp/src/ |
| H A D | vcfremap.cpp | 194 unsigned int referencePos; in main() local
209 sw.Align(referencePos, cigar, reference, alternateQuery); in main()
217 string ref = reference.substr(referencePos); in main()
218 positionDiffs.push_back(referencePos); // TODO this... is borked in main()
|
| H A D | vcfleftalign.cpp | 160 unsigned int referencePos; in getAlignment() local
162 sw.Align(referencePos, cigar, ref, alt); in getAlignment()
163 alignments.push_back(AltAlignment(referencePos, alt, cigar)); in getAlignment()
|
| H A D | Variant.cpp | 2114 unsigned int referencePos; in parsedAlternates() local
2140 sw.Align(referencePos, cigar, reference_M, alternateQuery_M); in parsedAlternates()
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib/src/ |
| H A D | vcfremap.cpp | 194 unsigned int referencePos; in main() local
209 sw.Align(referencePos, cigar, reference, alternateQuery); in main()
217 string ref = reference.substr(referencePos); in main()
218 positionDiffs.push_back(referencePos); // TODO this... is borked in main()
|
| H A D | vcfleftalign.cpp | 160 unsigned int referencePos; in getAlignment() local
162 sw.Align(referencePos, cigar, ref, alt); in getAlignment()
163 alignments.push_back(AltAlignment(referencePos, alt, cigar)); in getAlignment()
|
| /dports/games/libretro-play/Play--3cd0a367b5e24c061a6310c68c9fa7f6b531ebd4/tools/VuTest/ |
| H A D | VuAssembler.cpp | 52 size_t referencePos = labelRef.second.address; in ResolveLabelReferences() local
54 int offset = static_cast<int>(labelPos - referencePos - 1); in ResolveLabelReferences()
59 uint32& instruction = m_startPtr[referencePos * 2]; in ResolveLabelReferences()
|
| /dports/games/libretro-play/Play--3cd0a367b5e24c061a6310c68c9fa7f6b531ebd4/Source/ |
| H A D | MIPSAssembler.cpp | 51 size_t referencePos = labelRef.second.address; in ResolveLabelReferences() local
53 int offset = static_cast<int>(labelPos - referencePos - 1); in ResolveLabelReferences()
58 uint32& instruction = m_startPtr[referencePos]; in ResolveLabelReferences()
|
| /dports/emulators/ppsspp/ppsspp-1.12.3/ext/armips/Archs/MIPS/ |
| H A D | PsxRelocator.h | 16 int referencePos; member
|
| H A D | PsxRelocator.cpp | 220 rel.referencePos = data.getDoubleWord(pos); in parseObject()
453 … relData.relocationBase = relocationOffsets[rel.referenceId] + rel.referencePos+rel.relativeOffset; in relocateFile()
|
| /dports/emulators/ppsspp-qt5/ppsspp-1.12.3/ext/armips/Archs/MIPS/ |
| H A D | PsxRelocator.h | 16 int referencePos; member
|
| H A D | PsxRelocator.cpp | 220 rel.referencePos = data.getDoubleWord(pos); in parseObject()
453 … relData.relocationBase = relocationOffsets[rel.referenceId] + rel.referencePos+rel.relativeOffset; in relocateFile()
|
| /dports/emulators/libretro-ppsspp/ppsspp-1.12.3/ext/armips/Archs/MIPS/ |
| H A D | PsxRelocator.h | 16 int referencePos; member
|
| H A D | PsxRelocator.cpp | 220 rel.referencePos = data.getDoubleWord(pos); in parseObject()
453 … relData.relocationBase = relocationOffsets[rel.referenceId] + rel.referencePos+rel.relativeOffset; in relocateFile()
|
| /dports/games/0ad/0ad-0.0.23b-alpha/source/tools/atlas/GameInterface/Handlers/ |
| H A D | ObjectHandlers.cpp | 477 CFixedVector3D referencePos;
481 referencePos = cmpPosition->GetPosition();
488 CFixedVector3D dir = fTargetPos - referencePos;
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| /dports/games/libretro-yabause/yabause-ea5b118/yabause/src/play/src/ |
| H A D | AArch32Assembler.cpp | 98 size_t referencePos = labelReferencePair.second; in ResolveLabelReferences() local
100 int offset = static_cast<int>(labelPos - referencePos) / 4; in ResolveLabelReferences()
103 m_stream->Seek(referencePos, Framework::STREAM_SEEK_SET); in ResolveLabelReferences()
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/snp_store/ |
| H A D | snp_store.h | 3610 TReadPos referencePos = 0; // corresponds to readPos
3630 … while (referencePos < (TReadPos)fragIt->begin2) { // read stretch before matching fragment starts
3631 … SEQAN_ASSERT_LT(referencePos, (TReadPos)length(fragmentStore.readSeqStore[refReadId]));
3635 …(fragmentStore.alignedReadStore[refMatchPosId].gaps, TGapAnchor(referencePos,referencePos + diff),…
3640 ++referencePos;
3643 for (TSize i = 0; i<fragIt->len; ++i, ++profilePos, ++referencePos, ++alignPos) {
3644 … SEQAN_ASSERT_LT(referencePos, (TReadPos)length(fragmentStore.readSeqStore[refReadId]));
3650 …(fragmentStore.alignedReadStore[refMatchPosId].gaps, TGapAnchor(referencePos,referencePos + diff),…
3658 for (; referencePos < (TReadPos)length(fragmentStore.readSeqStore[refReadId]); ++referencePos) {
3663 …fMatchPosId].endPos = fragmentStore.alignedReadStore[refMatchPosId].beginPos + referencePos + diff;
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| /dports/games/libretro-play/Play--3cd0a367b5e24c061a6310c68c9fa7f6b531ebd4/deps/CodeGen/src/ |
| H A D | AArch32Assembler.cpp | 100 size_t referencePos = labelReferencePair.second; in ResolveLabelReferences() local
102 int offset = static_cast<int>(labelPos - referencePos) / 4; in ResolveLabelReferences()
105 m_stream->Seek(referencePos, Framework::STREAM_SEEK_SET); in ResolveLabelReferences()
|
| /dports/multimedia/kdenlive/kdenlive-21.12.3/src/timeline2/model/ |
| H A D | timelinemodel.hpp | 613 …int getBestSnapPos(int referencePos, int diff, std::vector<int> pts = std::vector<int>(), int curs…
|