| /dports/biology/ugene/ugene-40.1/src/libs_3rdparty/samtools/src/samtools/bcftools/ |
| H A D | em.c | 24 double *pdg; in get_pdg3() local
86 const double *pdg = a->pdg + i * 3; in prob1() local
87 p *= pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]; in prob1()
102 f0 += (pdg[1] * f3[1] + 2. * pdg[2] * f3[2]) in freq_iter()
103 / (pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]); in freq_iter()
124 a.beg = beg; a.end = end; a.pdg = pdg; in freqml()
140 tmp[0] = pdg[0] * g[0]; tmp[1] = pdg[1] * g[1]; tmp[2] = pdg[2] * g[2]; in g3_iter()
280 pdg[0] = get_pdg3(b0); pdg[1] = get_pdg3(b1); in bcf_pair_freq()
281 if (pdg[0] == 0 || pdg[1] == 0) { in bcf_pair_freq()
282 free(pdg[0]); free(pdg[1]); in bcf_pair_freq()
[all …]
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| /dports/biology/bio-mocha/bcftools-1.14/ |
| H A D | em.c | 67 const double *pdg; member
79 const double *pdg = a->pdg + i * 3; in prob1() local
80 p *= pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]; in prob1()
95 f0 += (pdg[1] * f3[1] + 2. * pdg[2] * f3[2]) in freq_iter()
96 / (pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]); in freq_iter()
117 a.beg = beg; a.end = end; a.pdg = pdg; in freqml()
133 tmp[0] = pdg[0] * g[0]; tmp[1] = pdg[1] * g[1]; tmp[2] = pdg[2] * g[2]; in g3_iter()
169 double *pdg; in bcf_em1() local
177 pdg = call->pdg; in bcf_em1()
178 if (pdg == 0) return -1; in bcf_em1()
[all …]
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| /dports/biology/bcftools/bcftools-1.14/ |
| H A D | em.c | 67 const double *pdg; member
79 const double *pdg = a->pdg + i * 3; in prob1() local
80 p *= pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]; in prob1()
95 f0 += (pdg[1] * f3[1] + 2. * pdg[2] * f3[2]) in freq_iter()
96 / (pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]); in freq_iter()
117 a.beg = beg; a.end = end; a.pdg = pdg; in freqml()
133 tmp[0] = pdg[0] * g[0]; tmp[1] = pdg[1] * g[1]; tmp[2] = pdg[2] * g[2]; in g3_iter()
169 double *pdg; in bcf_em1() local
177 pdg = call->pdg; in bcf_em1()
178 if (pdg == 0) return -1; in bcf_em1()
[all …]
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| /dports/biology/py-pysam/pysam-0.18.0/bcftools/ |
| H A D | em.c | 67 const double *pdg; member
79 const double *pdg = a->pdg + i * 3; in prob1() local
80 p *= pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]; in prob1()
95 f0 += (pdg[1] * f3[1] + 2. * pdg[2] * f3[2]) in freq_iter()
96 / (pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]); in freq_iter()
117 a.beg = beg; a.end = end; a.pdg = pdg; in freqml()
133 tmp[0] = pdg[0] * g[0]; tmp[1] = pdg[1] * g[1]; tmp[2] = pdg[2] * g[2]; in g3_iter()
169 double *pdg; in bcf_em1() local
177 pdg = call->pdg; in bcf_em1()
178 if (pdg == 0) return -1; in bcf_em1()
[all …]
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| H A D | em.c.pysam.c | 69 const double *pdg; member
81 const double *pdg = a->pdg + i * 3; in prob1() local
82 p *= pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]; in prob1()
97 f0 += (pdg[1] * f3[1] + 2. * pdg[2] * f3[2]) in freq_iter()
98 / (pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]); in freq_iter()
119 a.beg = beg; a.end = end; a.pdg = pdg; in freqml()
135 tmp[0] = pdg[0] * g[0]; tmp[1] = pdg[1] * g[1]; tmp[2] = pdg[2] * g[2]; in g3_iter()
171 double *pdg; in bcf_em1() local
179 pdg = call->pdg; in bcf_em1()
180 if (pdg == 0) return -1; in bcf_em1()
[all …]
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| /dports/lang/gcc6-aux/gcc-6-20180516/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
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| /dports/lang/gcc12-devel/gcc-12-20211205/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
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| /dports/devel/riscv64-none-elf-gcc/gcc-8.4.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/devel/riscv64-gcc/gcc-8.3.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc10/gcc-10.3.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc11-devel/gcc-11-20211009/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc11/gcc-11.2.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/devel/arm-none-eabi-gcc/gcc-8.4.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/devel/riscv32-unknown-elf-gcc/gcc-8.4.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc9-devel/gcc-9-20211007/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/devel/aarch64-none-elf-gcc/gcc-8.4.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc9-aux/gcc-9.1.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/misc/cxx_atomics_pic/gcc-11.2.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc8/gcc-8.5.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gnat_util/gcc-6-20180516/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/devel/avr-gcc/gcc-10.2.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc10-devel/gcc-10-20211008/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
|
| /dports/lang/gcc9/gcc-9.4.0/gcc/testsuite/gfortran.dg/ |
| H A D | elemental_subroutine_11.f90 | 41 integer :: pdg = 0 component
67 subroutine field_data_init (prt, pdg) argument
69 integer, intent(in) :: pdg local
70 prt%pdg = pdg
74 integer :: pdg local
76 pdg = prt%pdg
91 integer :: pdg local
92 pdg = model%field(i)%get_pdg ()
97 integer, intent(in) :: pdg local
101 if (pdg == 0) then
[all …]
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| /dports/biology/seqan1/seqan-1.3.1/lib/samtools/bcftools/ |
| H A D | prob1.c | 193 double *pdg = ma->pdg + j * 3; in cal_pdg() local
194 pdg[0] = ma->q2p[pi[b->n_alleles]]; pdg[1] = ma->q2p[pi[1]]; pdg[2] = ma->q2p[pi[0]]; in cal_pdg()
216 pdg = ma->pdg + i * 3; in mc_freq_iter()
217 f += (pdg[1] * f3[1] + 2. * pdg[2] * f3[2]) in mc_freq_iter()
218 / (pdg[0] * f3[0] + pdg[1] * f3[1] + pdg[2] * f3[2]); in mc_freq_iter()
227 double max, f3[3], *pdg = ma->pdg + k * 3; in bcf_p1_call_gt() local
251 pdg = ma->pdg; in mc_cal_y_core()
260 pdg = ma->pdg + _j * 3; in mc_cal_y_core()
261 p[0] = pdg[0]; p[1] = 2. * pdg[1]; p[2] = pdg[2]; in mc_cal_y_core()
360 double *pdg = p1a->pdg + i * 3; in bcf_p1_cal_g3() local
[all …]
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| H A D | ld.c | 15 static int freq_iter(int n, double *pdg[2], double f[4]) in freq_iter()
22 p[0] = pdg[0] + i * 3; p[1] = pdg[1] + i * 3; in freq_iter()
43 double *pdg[2], flast[4], r; in bcf_ld_freq() local
67 pdg[0] = malloc(3 * n_smpl * sizeof(double)); in bcf_ld_freq()
68 pdg[1] = malloc(3 * n_smpl * sizeof(double)); in bcf_ld_freq()
72 double *p = pdg[j] + i * 3; in bcf_ld_freq()
81 freq_iter(n_smpl, pdg, f); in bcf_ld_freq()
89 free(pdg[0]); free(pdg[1]); in bcf_ld_freq()
|