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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/
H A Daln_reader.cpp437 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in x_CalculateMiddleSections() local
548 for (TNumrow row_i = 1; row_i < m_Dim; row_i++) { in GetSeqAlign() local
556 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
557 m_SeqVec[row_i].resize(m_Seqs[row_i].length(), 0); in GetSeqAlign()
569 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
586 m_SeqVec[row_i][m_SeqLen[row_i]++] = residue[0]; in GetSeqAlign()
602 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
610 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
616 prev_is_gap[row_i] = is_gap[row_i]; in GetSeqAlign()
626 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
[all …]
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/readers/
H A Daln_reader.cpp437 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in x_CalculateMiddleSections() local
548 for (TNumrow row_i = 1; row_i < m_Dim; row_i++) { in GetSeqAlign() local
556 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
557 m_SeqVec[row_i].resize(m_Seqs[row_i].length(), 0); in GetSeqAlign()
569 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
586 m_SeqVec[row_i][m_SeqLen[row_i]++] = residue[0]; in GetSeqAlign()
602 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
610 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
616 prev_is_gap[row_i] = is_gap[row_i]; in GetSeqAlign()
626 for (TNumrow row_i = 0; row_i < m_Dim; row_i++) { in GetSeqAlign() local
[all …]
/dports/biology/subread/subread-2.0.2-source/src/longread-one/
H A DLRMchro-event.c447 row_i = read_cursor - last_correct_base; in LRMdynamic_in_middle()
448 int slope_offset = row_i>0?best_offset_history[row_i-1]:0; in LRMdynamic_in_middle()
461 …score_from_del = LRMDP_score(row_i, indel_i+1) + ((LRMDP_move(row_i, indel_i+1) == 'M' || LRMDP_mo… in LRMdynamic_in_middle()
471 LRMDP_move(row_i, indel_i) = 'I'; in LRMdynamic_in_middle()
473 LRMDP_score(row_i, indel_i) = final_score; in LRMdynamic_in_middle()
486 indel_i = trying_indel_length + expected_indels -(row_i >0?best_offset_history[row_i - 1]:0); in LRMdynamic_in_middle()
491 int next_slope_offset = row_i > 1?best_offset_history[row_i-2]:0; in LRMdynamic_in_middle()
499 row_i--; in LRMdynamic_in_middle()
505 row_i--; in LRMdynamic_in_middle()
519 for(row_i = 0; row_i < moves/2; row_i++){ in LRMdynamic_in_middle()
[all …]
/dports/graphics/pcl-pointclouds/pcl-pcl-1.12.0/surface/include/pcl/surface/impl/
H A Dmarching_cubes_rbf.hpp59 for (unsigned int row_i = 0; row_i < 2*N; ++row_i) in voxelizeData() local
62 bool row_off = (row_i >= N); in voxelizeData()
67 …M (row_i, col_i) = kernel (Eigen::Vector3f ((*input_)[col_i%N].getVector3fMap ()).cast<double> () … in voxelizeData()
68 …Eigen::Vector3f ((*input_)[row_i%N].getVector3fMap ()).cast<double> () + Eigen::Vector3f ((*input_… in voxelizeData()
71 d (row_i, 0) = row_off * off_surface_epsilon_; in voxelizeData()
/dports/graphics/cimg/CImg-v.2.9.7/plugins/
H A DcvMat.h203 const char* row_i = src.ptr<char>(i); in assign() local
205 std::memcpy(row_o,row_i,size.width*sizeof(charT)); in assign()
215 const char* row_i = channels[c].ptr<char>(i); in assign() local
217 std::memcpy(row_o,row_i,size.width*sizeof(char)); in assign()
227 const short* row_i = src.ptr<short>(i); in assign() local
229 std::memcpy(row_o,row_i,size.width*sizeof(short)); in assign()
239 const short* row_i = channels[c].ptr<short>(i); in assign() local
251 const float* row_i = src.ptr<float>(i); in assign() local
253 std::memcpy(row_o,row_i,size.width*sizeof(float)); in assign()
263 const float* row_i = channels[c].ptr<float>(i); in assign() local
[all …]
/dports/graphics/gmic-qt/CImg-v.2.9.8/plugins/
H A DcvMat.h203 const char* row_i = src.ptr<char>(i); in assign() local
205 std::memcpy(row_o,row_i,size.width*sizeof(charT)); in assign()
215 const char* row_i = channels[c].ptr<char>(i); in assign() local
217 std::memcpy(row_o,row_i,size.width*sizeof(char)); in assign()
227 const short* row_i = src.ptr<short>(i); in assign() local
229 std::memcpy(row_o,row_i,size.width*sizeof(short)); in assign()
239 const short* row_i = channels[c].ptr<short>(i); in assign() local
251 const float* row_i = src.ptr<float>(i); in assign() local
253 std::memcpy(row_o,row_i,size.width*sizeof(float)); in assign()
263 const float* row_i = channels[c].ptr<float>(i); in assign() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/alnmgr/
H A Daln_stats.hpp110 for (size_t row_i = 0; row_i < m_AlnIdVec[aln_i].size(); ++row_i) { in CAlnStats() local
112 const TAlnSeqIdIRef& id = m_AlnIdVec[aln_i][row_i]; in CAlnStats()
118 it->second.push_back(x_AddId(id, aln_i, row_i)); in CAlnStats()
128 m_RowVecVec[*idx_it][aln_i] = int(row_i); in CAlnStats()
137 idx_vec.push_back(x_AddId(id, aln_i, row_i)); in CAlnStats()
321 size_t x_AddId(const TAlnSeqIdIRef& id, size_t aln_i, size_t row_i) in x_AddId() argument
335 rows[aln_i] = int(row_i); in x_AddId()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/alnmgr/
H A Daln_stats.hpp110 for (size_t row_i = 0; row_i < m_AlnIdVec[aln_i].size(); ++row_i) { in CAlnStats() local
112 const TAlnSeqIdIRef& id = m_AlnIdVec[aln_i][row_i]; in CAlnStats()
118 it->second.push_back(x_AddId(id, aln_i, row_i)); in CAlnStats()
128 m_RowVecVec[*idx_it][aln_i] = int(row_i); in CAlnStats()
137 idx_vec.push_back(x_AddId(id, aln_i, row_i)); in CAlnStats()
321 size_t x_AddId(const TAlnSeqIdIRef& id, size_t aln_i, size_t row_i) in x_AddId() argument
335 rows[aln_i] = int(row_i); in x_AddId()
/dports/misc/elki/elki-release0.7.1-1166-gfb1fffdf3/elki-clustering/src/main/java/de/lmu/ifi/dbs/elki/algorithm/clustering/em/
H A DMultivariateGaussianModel.java171 double[] row_i = covariance[i], pri_i = priormatrix[i]; in finalizeEStep() local
173 covariance[j][i] = row_i[j] = (row_i[j] + prior * pri_i[j]) * f2; in finalizeEStep()
176 row_i[i] = (row_i[i] + prior * pri_i[i]) * f2; in finalizeEStep()
181 double[] row_i = covariance[i]; in finalizeEStep() local
183 covariance[j][i] = row_i[j] *= f; in finalizeEStep()
186 row_i[i] *= f; in finalizeEStep()
H A DTwoPassMultivariateGaussianModel.java201 double[] row_i = covariance[i], pri_i = priormatrix[i]; in finalizeEStep() local
203 covariance[j][i] = row_i[j] = (row_i[j] + prior * pri_i[j]) * f2; in finalizeEStep()
206 row_i[i] = (row_i[i] + prior * pri_i[i]) * f2; in finalizeEStep()
211 double[] row_i = covariance[i]; in finalizeEStep() local
213 covariance[j][i] = row_i[j] *= f; in finalizeEStep()
216 row_i[i] *= f; in finalizeEStep()
/dports/math/dbcsr/dbcsr-2.1.0/src/block/
H A Ddbcsr_index_operations.F109 ALLOCATE (row_i(nblks))
126 row_i(blk) = stored_row
140 WRITE (*, *) "new row_i", row_i
171 ALLOCATE (row_i(nblks))
192 row_i(blk) = stored_row
206 WRITE (*, *) "new row_i", row_i
230 DO WHILE (row_i(blk) .EQ. row)
255 row_i(row_p(row) + 1:row_p(row + 1)) = row
268 row_i(dst_i, row_p(row) + 1:row_p(row + 1)) = row
594 IF (SIZE(row_i) .EQ. 0) RETURN
[all …]
/dports/science/py-scikit-learn/scikit-learn-1.0.2/sklearn/preprocessing/
H A D_csr_polynomial_expansion.pyx96 cdef INDEX_T total_nnz = 0, row_i, nnz
99 for row_i in range(indptr.shape[0]-1):
101 nnz = indptr[row_i + 1] - indptr[row_i]
123 for row_i in range(indptr.shape[0]-1):
124 row_starts = indptr[row_i]
125 row_ends = indptr[row_i + 1]
150 expanded_indptr[row_i+1] = expanded_indptr[row_i] + num_cols_in_row
/dports/textproc/rasqal/rasqal-0.9.33/src/
H A Drasqal_row.c379 int row_i; in rasqal_new_row_sequence() local
401 row_i = 0; in rasqal_new_row_sequence()
404 const char * var_name = GET_CELL(row_i, column_i, 0); in rasqal_new_row_sequence()
422 for(row_i = 1; 1; row_i++) { in rasqal_new_row_sequence()
428 if(GET_CELL(row_i, column_i, 0) || GET_CELL(row_i, column_i, 1)) { in rasqal_new_row_sequence()
445 if(GET_CELL(row_i, column_i, 0)) { in rasqal_new_row_sequence()
447 const char* str = GET_CELL(row_i, column_i, 0); in rasqal_new_row_sequence()
468 } else if(GET_CELL(row_i, column_i, 1)) { in rasqal_new_row_sequence()
472 str = RASQAL_GOOD_CAST(const unsigned char*, GET_CELL(row_i, column_i, 1)); in rasqal_new_row_sequence()
/dports/math/e-antic/e-antic-1.0.0-rc.13/libeantic/upstream/antic/qsieve/
H A Dblock_lanczos.c378 row_i = M[cols[i]]; in find_nonsingular_sub()
385 row_j[0] = row_i[0]; in find_nonsingular_sub()
386 row_j[1] = row_i[1]; in find_nonsingular_sub()
387 row_i[0] = m0; in find_nonsingular_sub()
388 row_i[1] = m1; in find_nonsingular_sub()
420 row_j[0] = row_i[0]; in find_nonsingular_sub()
421 row_j[1] = row_i[1]; in find_nonsingular_sub()
422 row_i[0] = m0; in find_nonsingular_sub()
423 row_i[1] = m1; in find_nonsingular_sub()
442 row_j[0] ^= row_i[0]; in find_nonsingular_sub()
[all …]
/dports/math/e-antic/flint2-ae7ec89/qsieve/
H A Dblock_lanczos.c378 row_i = M[cols[i]]; in find_nonsingular_sub()
385 row_j[0] = row_i[0]; in find_nonsingular_sub()
386 row_j[1] = row_i[1]; in find_nonsingular_sub()
387 row_i[0] = m0; in find_nonsingular_sub()
388 row_i[1] = m1; in find_nonsingular_sub()
420 row_j[0] = row_i[0]; in find_nonsingular_sub()
421 row_j[1] = row_i[1]; in find_nonsingular_sub()
422 row_i[0] = m0; in find_nonsingular_sub()
423 row_i[1] = m1; in find_nonsingular_sub()
442 row_j[0] ^= row_i[0]; in find_nonsingular_sub()
[all …]
/dports/math/flintqs/FlintQS-1.0/src/
H A Dlanczos.cpp400 row_i = M[cols[i]]; in find_nonsingular_sub()
407 row_j[0] = row_i[0]; in find_nonsingular_sub()
408 row_j[1] = row_i[1]; in find_nonsingular_sub()
409 row_i[0] = m0; in find_nonsingular_sub()
410 row_i[1] = m1; in find_nonsingular_sub()
442 row_j[0] = row_i[0]; in find_nonsingular_sub()
443 row_j[1] = row_i[1]; in find_nonsingular_sub()
444 row_i[0] = m0; in find_nonsingular_sub()
445 row_i[1] = m1; in find_nonsingular_sub()
464 row_j[0] ^= row_i[0]; in find_nonsingular_sub()
[all …]
/dports/math/flint2/flint-2.8.4/qsieve/
H A Dblock_lanczos.c378 row_i = M[cols[i]]; in find_nonsingular_sub()
385 row_j[0] = row_i[0]; in find_nonsingular_sub()
386 row_j[1] = row_i[1]; in find_nonsingular_sub()
387 row_i[0] = m0; in find_nonsingular_sub()
388 row_i[1] = m1; in find_nonsingular_sub()
420 row_j[0] = row_i[0]; in find_nonsingular_sub()
421 row_j[1] = row_i[1]; in find_nonsingular_sub()
422 row_i[0] = m0; in find_nonsingular_sub()
423 row_i[1] = m1; in find_nonsingular_sub()
442 row_j[0] ^= row_i[0]; in find_nonsingular_sub()
[all …]
/dports/science/cp2k/cp2k-2e995eec7fd208c8a72d9544807bd8b8ba8cd1cc/exts/dbcsr/src/block/
H A Ddbcsr_index_operations.F110 ALLOCATE (row_i(nblks))
127 row_i(blk) = stored_row
141 WRITE (*, *) "new row_i", row_i
173 ALLOCATE (row_i(nblks))
194 row_i(blk) = stored_row
208 WRITE (*, *) "new row_i", row_i
233 DO WHILE (row_i(blk) .EQ. row)
258 row_i(row_p(row) + 1:row_p(row + 1)) = row
271 row_i(dst_i, row_p(row) + 1:row_p(row + 1)) = row
601 IF (SIZE(row_i) .EQ. 0) RETURN
[all …]
/dports/databases/xtrabackup8/percona-xtrabackup-8.0.14/mysql-test/suite/rpl/t/
H A Drpl_row_jsondiff_stress.test314 --let $row_i= 1
315 while ($row_i <= $row_count)
317 if ($verb==3) { echo -- r$row_i --; }
355 --let $null_rows= $null_rows, $row_i
380 … $fix= $fix UPDATE t SET c$col_i = '[1, "long string in col $col_i, row $row_i"]' WHERE i = $row_i;
387 --let $fix= $fix UPDATE t SET c$col_i = 1 WHERE i = $row_i;
395 --inc $row_i
448 --let $row_i= 1
449 while ($row_i <= $row_count)
451 eval INSERT INTO t(i) VALUES ($row_i);
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/alnmgr/
H A Dalnseq.cpp289 NON_CONST_ITERATE (TSeqs, row_i, m_Rows) { in InitRowsStartIts()
290 CAlnMixSeq * row = *row_i; in InitRowsStartIts()
320 NON_CONST_ITERATE (list<CRef<CAlnMixSeq> >, row_i, m_ExtraRows) { in InitExtraRowsStartIts()
321 CAlnMixSeq * row = *row_i; in InitExtraRowsStartIts()
346 NON_CONST_ITERATE (TSeqs, row_i, m_Rows) { in RowsStartItsContsistencyCheck()
347 ITERATE (CAlnMixStarts, st_i, (*row_i)->GetStarts()) { in RowsStartItsContsistencyCheck()
349 StartItsConsistencyCheck(**row_i, in RowsStartItsContsistencyCheck()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/alnmgr/
H A Dalnseq.cpp289 NON_CONST_ITERATE (TSeqs, row_i, m_Rows) { in InitRowsStartIts()
290 CAlnMixSeq * row = *row_i; in InitRowsStartIts()
320 NON_CONST_ITERATE (list<CRef<CAlnMixSeq> >, row_i, m_ExtraRows) { in InitExtraRowsStartIts()
321 CAlnMixSeq * row = *row_i; in InitExtraRowsStartIts()
346 NON_CONST_ITERATE (TSeqs, row_i, m_Rows) { in RowsStartItsContsistencyCheck()
347 ITERATE (CAlnMixStarts, st_i, (*row_i)->GetStarts()) { in RowsStartItsContsistencyCheck()
349 StartItsConsistencyCheck(**row_i, in RowsStartItsContsistencyCheck()
/dports/science/hypre/hypre-2.23.0/src/parcsr_ls/
H A Dpar_mod_multi_interp_device.c1292 if (row_i >= nrows || read_only_load(&CF_marker[row_i]) >= 0) in hypreCUDAKernel_cfmarker_masked_rowsum()
1322 if (row_i != col) in hypreCUDAKernel_cfmarker_masked_rowsum()
1367 row_sums[row_i] = row_sum_i; in hypreCUDAKernel_cfmarker_masked_rowsum()
1384 if (row_i >= num_points) in hypreCUDAKernel_mutli_pi_rowsum()
1513 if (row_i >= num_points) in hypreCUDAKernel_generate_Pdiag_i_Poffd_i()
1614 if (row_i >= num_points) in hypreCUDAKernel_generate_Pdiag_j_Poffd_j()
1764 if (row_i >= stop - start) in hypreCUDAKernel_insert_remaining_weights()
1846 if (row_i >= num_points) in hypreCUDAKernel_generate_Qdiag_j_Qoffd_j()
2015 w_row_sum[row_i] = w_row_sum_i; in hypreCUDAKernel_generate_Qdiag_j_Qoffd_j()
2033 if (row_i >= num_points) in hypreCUDAKernel_pass_order_count()
[all …]
/dports/www/chromium-legacy/chromium-88.0.4324.182/native_client/src/trusted/validator_arm/
H A Ddgen_opt.py42 row_i, row_j = rows[i], rows[j]
44 if row_i.can_merge(row_j):
48 new_rows.append(row_i + row_j)
/dports/math/py-rpy2/rpy2-3.4.5/rpy2/robjects/
H A Dhelp.py145 for row_i in range(len(rds[0])):
147 (row_i,
148 rds[FILE_I][row_i],
149 rds[NAME_I][row_i],
150 rds[TYPE_I][row_i],
151 rds[TITLE_I][row_i],
152 rds[ENCODING_I][row_i],
155 for alias in rds[ALIAS_I][row_i]:
/dports/www/chromium-legacy/chromium-88.0.4324.182/native_client/src/trusted/validator_mips/dgen/
H A Ddgen_opt.py41 row_i, row_j = rows[i], rows[j]
43 if row_i.can_merge(row_j):
47 new_rows.append(row_i + row_j)

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