/dports/biology/plink/plink-ng-79b2df8c/2.0/cindex/src/ |
H A D | cindex.cpp | 43 for (uintptr_t ulii = 1; ulii != size; ++ulii) { in CIndex() local 111 for (uintptr_t ulii = 0; ulii != size; ++ulii) { in CIndex() local 119 for (uintptr_t ulii = 1; ulii != size; ++ulii) { in CIndex() local 137 for (uintptr_t ulii = 0; ulii != size; ++ulii) { in CIndex() local 153 for (uintptr_t ulii = 0; ulii != size; ++ulii) { in CIndex() local 208 uintptr_t ulii = cur_word + remainder_bit; in CIndex() local 248 uintptr_t ulii = cur_word + remainder_bit; in CIndex() local 417 for (uintptr_t ulii = 0; ulii != orig_size; ++ulii) { in CIndexWeighted() local 483 for (uintptr_t ulii = 0; ulii != orig_size; ++ulii) { in CIndexWeighted() local
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/dports/biology/plink/plink-ng-79b2df8c/1.9/ |
H A D | plink_calc.c | 146 uintptr_t ulii; in update_rel_ibc() local 653 uintptr_t ulii; in popcount_xor_1mask_multiword() local 688 uintptr_t ulii; in popcount_xor_2mask_multiword() local 768 uintptr_t ulii; in ibs_test_init_col_buf() local 793 uintptr_t ulii; in fill_psbuf() local 844 uintptr_t ulii; in ibs_test_process_perms() local 917 uintptr_t ulii; in ibs_test_range() local 1027 uintptr_t ulii; in incr_wt_dist_missing() local 1050 uintptr_t ulii; in incr_dists_rm() local 1496 uintptr_t ulii; in incr_dists_rm_inv() local [all …]
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H A D | plink_lasso.c | 98 uintptr_t ulii; in lasso_bigmem() local 547 for (uintptr_t ulii = 0; ulii < cur_block_size; ulii++) { in lasso_lambda() local 564 for (uintptr_t ulii = 0; ulii < cur_block_size; ulii++) { in lasso_lambda() local 674 uintptr_t ulii; in lasso_smallmem() local 1042 uintptr_t ulii; in lasso() local
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H A D | plink_common.c | 3615 uintptr_t ulii; in last_set_bit() local 3629 uintptr_t ulii; in last_clear_bit() local 3650 uintptr_t ulii; in prev_unset_unsafe() local 5414 uintptr_t ulii; in qsort_ext2() local 5921 uintptr_t ulii; in is_monomorphic() local 5969 uintptr_t ulii; in less_than_two_genotypes() local 6288 uintptr_t ulii; in popcount_longs() local 6341 uintptr_t ulii; in popcount2_longs() local 6675 uintptr_t ulii; in popcount_longs_exclude() local 6725 uintptr_t ulii; in popcount_longs_intersect() local [all …]
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H A D | plink_set.c | 291 uintptr_t ulii; in load_range_list() local 828 uintptr_t ulii; in save_set_range() local 1032 uintptr_t ulii; in define_sets() local 2223 uintptr_t ulii; in load_range_list_sortpos() local 2490 uintptr_t ulii; in annotate() local 3290 uintptr_t ulii; in gene_report() local
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H A D | plink_cnv.c | 111 uintptr_t ulii; in cnv_intersect_load() local 496 uintptr_t ulii; in cnv_make_map() local 950 uintptr_t ulii; in plink_cnv() local
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H A D | plink_rserve.c | 58 uintptr_t ulii; in rserve_call() local
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H A D | plink_common.h | 1909 size_t ulii; in fill_ulong_zero() local 1922 size_t ulii; in fill_vvec_zero() local 1934 size_t ulii; in fill_ulong_one() local 1951 size_t ulii; in fill_int_zero() local 1958 size_t ulii; in fill_int_one() local 1965 size_t ulii; in fill_uint_zero() local 1972 size_t ulii; in fill_uint_one() local 1979 size_t ulii; in fill_float_zero() local 1986 size_t ulii; in fill_double_zero() local
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H A D | plink_filter.c | 453 uintptr_t ulii; in filter_attrib() local 685 uintptr_t ulii; in filter_attrib_sample() local 1203 uintptr_t ulii; in load_oblig_missing() local 1626 uintptr_t ulii; in mind_filter() local 2023 uintptr_t ulii; in calc_freqs_and_hwe() local 2530 uintptr_t ulii; in write_missingness_reports() local
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H A D | plink_ld.c | 829 uintptr_t ulii; in ld_prune() local 1532 uintptr_t ulii; in flipscan() local 2142 uintptr_t ulii; in ld_matrix_emitn() local 2228 uintptr_t ulii; in ld_report_matrix() local 2804 uintptr_t ulii; in load_and_split3() local 3804 uintptr_t ulii; in fast_epi_thread() local 4204 uintptr_t ulii; in epi_linear_thread() local 4639 uintptr_t ulii; in epi_logistic_thread() local 5739 uintptr_t ulii; in ld_report_regular() local 6358 uintptr_t ulii; in show_tags() local [all …]
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H A D | plink_data.c | 43 uintptr_t ulii; in sort_item_ids_nx() local 219 uintptr_t ulii; in load_map() local 478 uintptr_t ulii; in load_bim() local 1237 uintptr_t ulii; in load_covars() local 1740 uintptr_t ulii; in write_covars() local 3992 uintptr_t ulii; in oxford_to_bed() local 5254 uintptr_t ulii; in ped_to_bed_multichar_allele() local 5769 uintptr_t ulii; in ped_to_bed() local 6462 uintptr_t ulii; in lgen_to_bed() local 7076 uintptr_t ulii; in transposed_to_bed() local [all …]
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H A D | plink_family.c | 463 uintptr_t ulii; in erase_mendel_errors() local 738 uintptr_t ulii; in mendel_error_scan() local 1282 uintptr_t ulii; in populate_pedigree_rel_info() local 1778 uintptr_t ulii; in tdt_poo() local 2063 uintptr_t ulii; in tdt() local 2578 uintptr_t ulii; in get_sibship_info() local 3871 uintptr_t ulii; in dfam() local 4988 uintptr_t ulii; in qfam_compute_bw() local 5469 uintptr_t ulii; in qfam() local
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H A D | plink_dosage.c | 77 uintptr_t ulii; in dosage_load_score_files() local 585 uintptr_t ulii = 0; in plink1_dosage() local
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H A D | plink_cluster.c | 101 uintptr_t ulii; in load_clusters() local 1067 uintptr_t ulii; in read_dists() local 2921 uintptr_t ulii = 0; in mds_plot() local 3219 uintptr_t ulii = 0; in mds_plot_eigendecomp() local
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H A D | plink_homozyg.c | 1249 uintptr_t ulii; in assign_allelic_match_groups() local 1406 uintptr_t ulii; in roh_pool() local 2491 uintptr_t ulii; in calc_homozyg() local
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H A D | plink_assoc.c | 624 uintptr_t ulii; in calc_git() local 731 uintptr_t ulii; in calc_qgit() local 834 uintptr_t ulii; in calc_qgit_lin() local 2883 uintptr_t ulii; in qassoc_adapt_thread() local 3064 uintptr_t ulii; in qassoc_adapt_lin_thread() local 6115 uintptr_t ulii; in model_assoc() local 7819 uintptr_t ulii; in qassoc_set_test() local 8154 uintptr_t ulii; in qassoc() local 9183 uintptr_t ulii; in gxe_assoc() local 9620 uintptr_t ulii; in calc_git_missing() local [all …]
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/dports/biology/plink/plink-ng-79b2df8c/2.0/include/ |
H A D | plink2_bits.cc | 92 for (uintptr_t ulii = 3; ulii < full_vec_ct; ulii += 4) { in BitvecAnd() local 132 for (uintptr_t ulii = 3; ulii < full_vec_ct; ulii += 4) { in BitvecInvmask() local 172 for (uintptr_t ulii = 3; ulii < full_vec_ct; ulii += 4) { in BitvecOr() local 207 for (uintptr_t ulii = 3; ulii < full_vec_ct; ulii += 4) { in BitvecInvert() local 232 uintptr_t ulii = (*bitarr_iter) >> (loc % kBitsPerWord); in AdvTo1Bit() local 271 uintptr_t ulii = (*bitarr_iter) >> (loc % kBitsPerWord); in AdvBoundedTo1Bit() local 290 uintptr_t ulii = (~(*bitarr_ptr)) >> (loc % kBitsPerWord); in AdvBoundedTo0Bit() local 311 uintptr_t ulii; in FindLast1BitBefore() local 2229 for (uintptr_t ulii = 0; ulii != byte_ct; ++ulii) { in BytesumArr() local 2296 for (uintptr_t ulii = 0; ulii != byte_ct; ++ulii) { in CountByte() local [all …]
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H A D | plink2_base.h | 572 HEADER_INLINE uint32_t ctzw(unsigned long ulii) { in ctzw() 576 HEADER_INLINE uint32_t bsrw(unsigned long ulii) { in bsrw() 817 HEADER_INLINE VecW vecw_set1(uintptr_t ulii) { in vecw_set1() 1157 HEADER_INLINE VecW vecw_set1(uintptr_t ulii) { in vecw_set1() 1511 HEADER_INLINE VecW vecw_set1(uintptr_t ulii) { in vecw_set1()
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/dports/biology/plink/plink-ng-79b2df8c/2.0/ |
H A D | plink2_random.cc | 70 for (uintptr_t ulii = 0; ulii != idx_ct; ++ulii) { in FillGaussianDArrMain() local 145 for (uintptr_t ulii = start_idx; ulii != end_idx; ++ulii) { in RandomizeArenaMain() local
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H A D | plink2_matrix.h | 451 for (uintptr_t ulii = 0; ulii != row_ct; ++ulii) { in PrintMatrix() local 460 for (uintptr_t ulii = 0; ulii != row_ct; ++ulii) { in PrintFmatrix() local
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H A D | plink2_matrix_calc.cc | 2955 for (uintptr_t ulii = 0; ulii != cur_pair_ct_x2; ++ulii) { in CalcKingTableSubset() local 2963 for (uintptr_t ulii = 0; ulii != cur_pair_ct_x2; ++ulii) { in CalcKingTableSubset() local 4386 for (uintptr_t ulii = 0; ulii != full_write_ct; ++ulii) { in CalcGrm() local 5196 for (uintptr_t ulii = 0; ulii != gg_size; ++ulii) { in CalcPca() local 5200 for (uintptr_t ulii = 0; ulii != gg_size; ++ulii) { in CalcPca() local 5267 for (uintptr_t ulii = 0; ulii != b_size; ++ulii) { in CalcPca() local 7071 for (uintptr_t ulii = 0; ulii != vscore_ct; ++ulii) { in VscoreThread() local 7075 for (uintptr_t ulii = 0; ulii != vscore_ct; ++ulii) { in VscoreThread() local 7080 for (uintptr_t ulii = 0; ulii != vscore_ct; ++ulii) { in VscoreThread() local 7173 for (uintptr_t ulii = 0; ulii != kVscoreBlockSize; ++ulii) { in VscoreThread() local [all …]
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H A D | plink2_cmdline.h | 1049 for (uintptr_t ulii = 0; ulii != entry_ct; ulii++) { in SetAllI32Arr() local 1055 for (uintptr_t ulii = 0; ulii != entry_ct; ulii++) { in SetAllU32Arr() local 1061 for (uintptr_t ulii = 0; ulii != entry_ct; ulii++) { in ZeroFArr() local 1067 for (uintptr_t ulii = 0; ulii != entry_ct; ulii++) { in ZeroDArr() local 1075 for (uintptr_t ulii = 0; ulii != entry_ct; ulii++) { in ZeromovFArr() local
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H A D | plink2_matrix.cc | 1145 for (uintptr_t ulii = 0; ulii != orig_dim_l; ++ulii) { in invert_rank1_symm_start() local 1215 for (uintptr_t ulii = 0; ulii != orig_dim_l; ++ulii) { in InvertRank1SymmDiag() local 1328 for (uintptr_t ulii = 0; ulii != orig_dim_l; ++ulii) { in InvertRank2SymmDiag() local
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H A D | plink2_cmdline.cc | 940 uintptr_t ulii; in FindLast1BitBeforeBounded() local 965 for (uintptr_t ulii = 0; ulii != full_vec_ct; ++ulii) { in BitvecAndCopy() local 992 for (uintptr_t ulii = 0; ulii != full_vec_ct; ++ulii) { in BitvecInvmaskCopy() local 1028 for (uintptr_t ulii = 3; ulii < full_vec_ct; ulii += 4) { in BitvecInvertCopy() local 1106 for (uintptr_t ulii = 3; ulii < full_vec_ct; ulii += 4) { in BitvecInvertAndMask() local 1995 uintptr_t ulii = cur_pos % kBitsPerWord; in FindNth1BitFrom() local
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H A D | plink2_adjust.cc | 737 for (uintptr_t ulii = 0; ulii != entry_ct / kBitsPerWordD2; ++ulii) { in AdjustFile() local
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