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/dports/biology/py-bx-python/bx-python-0.8.13/scripts/
H A Ddiv_snp_table_chr.py103 snp_count = snp[chr].count_range(0, snp[chr].size)
107 div_count = div[chr].count_range(0, div[chr].size)
119 feature_snp_count += snp[chr].count_range(0, snp[chr].size)
120 …print(snp[chr].count_range(0, snp[chr].size), div[chr].count_range(0, div[chr].size), file=sys.std…
121 feature_div_count += div[chr].count_range(0, div[chr].size)
122 …print(snp[chr].count_range(0, snp[chr].size), div[chr].count_range(0, div[chr].size), file=sys.std…
127 ind_div_count = div[chr].count_range(start, end-start)
128 ind_snp_count = snp[chr].count_range(start, end-start)
H A DmMK_bitset.py111 AR_snp = AR_snp_bitsets[chr].count_range(window, window_size)
112 AR_div = AR_div_bitsets[chr].count_range(window, window_size)
113 nonAR_snp = nonAR_snp_bitsets[chr].count_range(window, window_size)
114 nonAR_div = nonAR_div_bitsets[chr].count_range(window, window_size)
H A Dbed_coverage_by_interval.py44 bases_covered = bitsets[chr].count_range(start, end-start)
47 bases_masked = mask[chr].count_range(start, end-start)
H A Dbed_coverage.py26 total += bitsets[chrom].count_range(0, bitsets[chrom].size)
H A Dbed_rand_intersect.py89 return b.count_range(0, b.size)
156 total_samples[i, featnum] += random2.count_range(0, random2.size)
H A Dbed_diff_basewise_summary.py17 total += bitsets[chrom].count_range(0, bitsets[chrom].size)
H A Dbed_intersect.py53 if fields[0] in bitsets and bitsets[fields[0]].count_range(start, end-start) >= mincols:
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/util/bitset/demo/
H A Dbm_sparse_sample.cpp81 unsigned sparse_idx = bv.count_range(0, 100 - 1); in main()
86 unsigned sparse_idx = bv.count_range(0, 90001 - 1); in main()
100 unsigned sparse_idx = bv.count_range(0, 100 - 1, rs_index); in main()
105 unsigned sparse_idx = bv.count_range(0, 90001 - 1, rs_index); in main()
/dports/biology/py-bx-python/bx-python-0.8.13/lib/bx/
H A Dbitset_tests.py58 self.assertEqual(bits.count_range(0, 0), 0)
59 self.assertEqual(bits.count_range(0, 20), 3)
60 self.assertEqual(bits.count_range(25, 25), 25)
61 self.assertEqual(bits.count_range(80, 20), 10)
62 self.assertEqual(bits.count_range(0, 100), 68)
H A Dbitset.pyx136 def count_range( self, start=0, count=None ): member in BitSet
218 def count_range( self, start, count ): member in BinnedBitSet
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/hgvs/
H A Dhgvs_nucleic_acid_parser.cpp58 (nucleotide_location >> count_range ) ACTION2(AssignNtSSR) | in SHgvsNucleicAcidGrammar()
59 (nucleotide_location >> nucleotide_seq >> count_range) ACTION3(AssignNtSSR) | in SHgvsNucleicAcidGrammar()
109 count_range VALASSIGN; in SHgvsNucleicAcidGrammar()
113 count_range = ("(" >> val_or_unknown >> "_" >> val_or_unknown >> ")") ACTION2(AssignCountRange); in SHgvsNucleicAcidGrammar()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/util/bitset/
H A Dbmsparsevec_compr.h962 size_type sv_idx = bv_null->count_range(0, idx); in set_null()
981 : bv_null->count_range(0, idx); // TODO: make test'n'count in inc()
1013 : bv_null->count_range(0, idx); // TODO: make test'n'count in inc()
1043 : bv_null->count_range(0, idx); // TODO: make test'n'count in inc_not_null()
1064 : bv_null->count_range(0, idx); // TODO: make test'n'count in set()
1221 *idx_to = found ? bv_null->count_range(0, idx) : 0; in resolve()
1237 copy_sz = bv_null->count_range(from, to, *bv_blocks_ptr_); in resolve_range()
1239 copy_sz = bv_null->count_range(from, to); in resolve_range()
1247 sv_left = bv_null->count_range(0, from); in resolve_range()
1409 BM_ASSERT(rank == bv_null->count_range(0, idx_from) - bv_null->test(idx_from)); in decode()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/util/bitset/
H A Dbmsparsevec_compr.h962 size_type sv_idx = bv_null->count_range(0, idx); in set_null()
981 : bv_null->count_range(0, idx); // TODO: make test'n'count in inc()
1013 : bv_null->count_range(0, idx); // TODO: make test'n'count in inc()
1043 : bv_null->count_range(0, idx); // TODO: make test'n'count in inc_not_null()
1064 : bv_null->count_range(0, idx); // TODO: make test'n'count in set()
1221 *idx_to = found ? bv_null->count_range(0, idx) : 0; in resolve()
1237 copy_sz = bv_null->count_range(from, to, *bv_blocks_ptr_); in resolve_range()
1239 copy_sz = bv_null->count_range(from, to); in resolve_range()
1247 sv_left = bv_null->count_range(0, from); in resolve_range()
1409 BM_ASSERT(rank == bv_null->count_range(0, idx_from) - bv_null->test(idx_from)); in decode()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/util/bitset/stress_test/
H A Drlebtv.h59 unsigned count_range(unsigned left,
216 unsigned gap_vector::count_range(unsigned left, in count_range() function
H A Dtest_util.h107 auto r = bv.count_range(prev_id, v1);
169 auto cnt = bv.count_range(from, to); in IntervalsCheck()
186 typename BV::size_type cnt = bv.count_range(to, from); in IntervalsCheck()
203 typename BV::size_type cnt = bv.count_range(from, to); in IntervalsCheck()
/dports/biology/py-bx-python/bx-python-0.8.13/lib/bx/intervals/operations/
H A Dbase_coverage.py17 coverage += bitsets[chrom].count_range(0, MAX_END)
H A Dcoverage.py59 bases_covered = bitsets[chrom].count_range(start, end-start)
H A Dsubtract.py59 if bitsets[chrom].count_range(start, end-start) >= mincols:
H A Dintersect.py62 if bitsets[chrom].count_range(start, end-start) >= mincols:
/dports/sysutils/ansible2/ansible-2.9.27/lib/ansible/modules/cloud/packet/
H A Dpacket_device.py401 count_range = range(count_offset, count_offset + count)
403 hostnames = [hostname_spec % i for i in count_range]
406 hostnames = [hostname_spec % i for i in count_range]
/dports/sysutils/ansible/ansible-4.7.0/ansible_collections/community/general/plugins/modules/cloud/packet/
H A Dpacket_device.py421 count_range = range(count_offset, count_offset + count)
423 hostnames = [hostname_spec % i for i in count_range]
426 hostnames = [hostname_spec % i for i in count_range]
/dports/sysutils/ansible/ansible-4.7.0/ansible_collections/community/general/plugins/modules/
H A Dpacket_device.py421 count_range = range(count_offset, count_offset + count)
423 hostnames = [hostname_spec % i for i in count_range]
426 hostnames = [hostname_spec % i for i in count_range]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/readers/hgvs/
H A Dhgvs_nucleic_acid_parser.hpp51 TRule<CCount> count_range; member
/dports/cad/ghdl/ghdl-1.0.0/testsuite/gna/bug24065/
H A Dcic_up.vhd83 subtype count_range is natural range log(2,out_rate)-1 downto 0; subtype
95 signal count : unsigned(count_range) := (others => '0');
/dports/biology/py-bx-python/bx-python-0.8.13/lib/bx/intervals/
H A Drandom_intervals.py27 assert rval.count_range(0, rval.size) == sum(lengths)

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