| /dports/biology/plink/plink-ng-79b2df8c/2.0/ |
| H A D | pgen_compress.cc | 168 uint32_t difflist_len; in main() local
169 …ist_len, vidx, &pgr, genovec, &difflist_common_geno, raregeno, difflist_sample_ids, &difflist_len); in main()
177 } else if (difflist_len <= max_difflist_len) { in main()
178 ZeroTrailingBits(2 * difflist_len, raregeno); in main()
179 difflist_sample_ids[difflist_len] = write_sample_ct; in main()
180 …BiallelicDifflistLimited(raregeno, difflist_sample_ids, difflist_common_geno, difflist_len, &spgw); in main()
182 …nsafe(raregeno, difflist_sample_ids, difflist_common_geno, write_sample_ct, difflist_len, genovec); in main()
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| H A D | plink2_misc.cc | 5550 const uint32_t word_ct = NypCtToWordCt(difflist_len); in GetSingletonIdxSparse()
5570 const uint32_t word_ct = NypCtToWordCt(difflist_len); in UpdateSampleDiploidSingletonCountSparseX()
5600 const uint32_t word_ct = NypCtToWordCt(difflist_len); in UpdateSampleSingletonCountSparseX()
5634 const uint32_t word_ct = NypCtToWordCt(difflist_len); in UpdateSampleSingletonCountSparseY()
5961 uint32_t difflist_len; in SampleCountsThread() local
6025 if (!difflist_len) { in SampleCountsThread()
6029 const uint32_t word_ct_m1 = (difflist_len - 1) / kBitsPerWordD2; in SampleCountsThread()
6039 loop_len = ModNz(difflist_len, kBitsPerWordD2); in SampleCountsThread()
6051 ZeroTrailingNyps(difflist_len, raregeno); in SampleCountsThread()
6069 const uint32_t difflist_word_ct = NypCtToWordCt(difflist_len); in SampleCountsThread()
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| H A D | plink2_matrix_calc.cc | 7030 uint32_t difflist_len; in VscoreThread() local
7031 … variant_uidx, pgrp, genovec, &difflist_common_geno, raregeno, difflist_sample_ids, &difflist_len); in VscoreThread()
7040 if (!difflist_len) { in VscoreThread()
7043 ZeroTrailingNyps(difflist_len, raregeno); in VscoreThread()
7045 const uint32_t word_ct_m1 = (difflist_len - 1) / kBitsPerWordD2; in VscoreThread()
7052 loop_len = ModNz(difflist_len, kBitsPerWordD2); in VscoreThread()
7090 …novecUnsafe(raregeno, difflist_sample_ids, difflist_common_geno, sample_ct, difflist_len, genovec); in VscoreThread()
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| /dports/biology/plink/plink-ng-79b2df8c/2.0/include/ |
| H A D | pgenlib_write.cc | 593 if (!difflist_len) { in SaveLdDifflist()
599 fwrite_bufp = Vint32Append(difflist_len, fwrite_bufp); in SaveLdDifflist()
636 if (difflist_idx == difflist_len) { in SaveLdDifflist()
858 } else if (difflist_len > sample_ctd64) { in PwcAppendBiallelicGenovecMain()
906 if ((!difflist_len) && (!most_common_geno)) { in PwcAppendBiallelicGenovecMain()
1049 if (!difflist_len) { in SaveLdInputList()
1055 fwrite_bufp = Vint32Append(difflist_len, fwrite_bufp); in SaveLdInputList()
1095 …assert((!(difflist_len % kBitsPerWordD2)) || (!(raregeno[difflist_len / kBitsPerWordD2] >> (2 * (d… in PwcAppendBiallelicDifflistLimitedMain()
1096 assert(difflist_sample_ids[difflist_len] == sample_ct); in PwcAppendBiallelicDifflistLimitedMain()
1124 } else if (difflist_len > sample_ctd64) { in PwcAppendBiallelicDifflistLimitedMain()
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| H A D | pgenlib_write.h | 177 …restrict difflist_sample_ids, uint32_t difflist_common_geno, uint32_t difflist_len, PgenWriterComm…
179 …restrict difflist_sample_ids, uint32_t difflist_common_geno, uint32_t difflist_len, STPgenWriter* … in SpgwAppendBiallelicDifflistLimited() argument
184 …dBiallelicDifflistLimited(raregeno, difflist_sample_ids, difflist_common_geno, difflist_len, pwcp); in SpgwAppendBiallelicDifflistLimited()
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| H A D | pgenlib_read.cc | 1803 if (!difflist_len) { in ParseDifflistHeader()
1841 if (reterr || (!difflist_len)) { in ParseAndSaveDifflist()
2119 uint32_t difflist_len; in ParseAndApplyDifflist() local
2121 if (reterr || (!difflist_len)) { in ParseAndApplyDifflist()
2170 uint32_t difflist_len; in ParseAndApplyDifflistSubset() local
2980 assert(difflist_len); in SkipDeltalistIds()
3047 uint32_t difflist_len; variable
3127 uint32_t difflist_len; variable
9352 if (!difflist_len) { in ValidateDifflistHeader()
9390 uint32_t difflist_len; in ValidateAndApplyDifflist() local
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| H A D | pgenlib_misc.cc | 1089 …t32_t* __restrict difflist_sample_ids, uint32_t common_geno, uint32_t difflist_len, uint32_t sampl…
1091 for (uint32_t difflist_idx = 0; difflist_idx != difflist_len; ++difflist_idx) {
2764 …ple_ids, uintptr_t difflist_common_geno, uint32_t sample_ct, uint32_t difflist_len, uintptr_t* __r… in PgrDifflistToGenovecUnsafe() argument
2779 if (difflist_idx_stop > difflist_len) { in PgrDifflistToGenovecUnsafe()
2780 if (difflist_idx == difflist_len) { in PgrDifflistToGenovecUnsafe()
2783 difflist_idx_stop = difflist_len; in PgrDifflistToGenovecUnsafe()
2794 if (difflist_idx_stop > difflist_len) { in PgrDifflistToGenovecUnsafe()
2795 if (difflist_idx == difflist_len) { in PgrDifflistToGenovecUnsafe()
2798 difflist_idx_stop = difflist_len; in PgrDifflistToGenovecUnsafe()
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| H A D | pgenlib_misc.h | 632 …ple_ids, uintptr_t difflist_common_geno, uint32_t sample_ct, uint32_t difflist_len, uintptr_t* __r…
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| /dports/devel/radare2/radare2-5.1.1/libr/include/ |
| H A D | r_debug.h | 206 ut32 difflist_len; member
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