/dports/biology/bcftools/bcftools-1.14/plugins/ |
H A D | gvcfz.c | 77 int32_t *tmpi, mtmpi, mean_min_dp_reported; member 249 int ret = bcf_get_info_int32(args->hdr_in,rec,"END",&args->tmpi,&args->mtmpi); in process_gvcf() 253 ret = bcf_get_format_int32(args->hdr_in,rec,gq_key,&args->tmpi,&args->mtmpi); in process_gvcf() 257 if ( ret<1 ) ret = bcf_get_format_int32(args->hdr_in,rec,gq_key,&args->tmpi,&args->mtmpi); in process_gvcf() 263 if ( bcf_get_format_int32(args->hdr_in,rec,"MIN_DP",&args->tmpi,&args->mtmpi)==1 ) in process_gvcf() 265 else if ( bcf_get_format_int32(args->hdr_in,rec,"DP",&args->tmpi,&args->mtmpi)==1 ) in process_gvcf() 271 ret = bcf_get_format_int32(args->hdr_in,rec,"PL",&args->tmpi,&args->mtmpi); in process_gvcf()
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/dports/biology/bio-mocha/bcftools-1.14/plugins/ |
H A D | gvcfz.c | 77 int32_t *tmpi, mtmpi, mean_min_dp_reported; member 249 int ret = bcf_get_info_int32(args->hdr_in,rec,"END",&args->tmpi,&args->mtmpi); in process_gvcf() 253 ret = bcf_get_format_int32(args->hdr_in,rec,gq_key,&args->tmpi,&args->mtmpi); in process_gvcf() 257 if ( ret<1 ) ret = bcf_get_format_int32(args->hdr_in,rec,gq_key,&args->tmpi,&args->mtmpi); in process_gvcf() 263 if ( bcf_get_format_int32(args->hdr_in,rec,"MIN_DP",&args->tmpi,&args->mtmpi)==1 ) in process_gvcf() 265 else if ( bcf_get_format_int32(args->hdr_in,rec,"DP",&args->tmpi,&args->mtmpi)==1 ) in process_gvcf() 271 ret = bcf_get_format_int32(args->hdr_in,rec,"PL",&args->tmpi,&args->mtmpi); in process_gvcf()
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/dports/biology/bio-mocha/bcftools-1.14/ |
H A D | vcfannotate.c | 152 int mtmpi, mtmpf, mtmps; member 530 hts_expand(int,1,args->mtmpi,args->tmpi); in setter_filter() 568 hts_expand(int,rec->d.n_flt,args->mtmpi,args->tmpi); in vcf_setter_filter() 771 ntmpi = bcf_get_info_int32(args->hdr, line, col->hdr_key_dst, &args->tmpi, &args->mtmpi); in setter_info_int() 790 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 845 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 852 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 1277 int nsrc = bcf_get_genotypes(args->files->readers[1].header,rec,&args->tmpi,&args->mtmpi); in vcf_setter_format_gt() 1562 hts_expand(int32_t,nvals*args->nsmpl_annot,args->mtmpi,args->tmpi); in setter_format_int() 1933 hts_expand(int32_t,ndst,args->mtmpi,args->tmpi); in vcf_setter_format_str() [all …]
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H A D | abuf.c | 75 int ngt, mgt, ntmpi, mtmpi, mtmp, mtmp2; member 446 hts_expand(int32_t,buf->ngt,buf->mtmpi,buf->tmpi); in _split_table_set_gt()
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H A D | filter.c | 102 int max_unpack, mtmpi, mtmpf, nsamples; member 565 tok->nvalues = bcf_get_info_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi); in filters_set_info_int() 699 if ( (nvals=bcf_get_format_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi))<0 ) in filters_set_format_int() 1113 hts_expand(int32_t, line->n_allele, flt->mtmpi, flt->tmpi); in filters_set_ac() 1765 int ngt = bcf_get_genotypes(flt->hdr, line, &flt->tmpi, &flt->mtmpi); in func_binom()
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/dports/biology/bcftools/bcftools-1.14/ |
H A D | vcfannotate.c | 152 int mtmpi, mtmpf, mtmps; member 530 hts_expand(int,1,args->mtmpi,args->tmpi); in setter_filter() 568 hts_expand(int,rec->d.n_flt,args->mtmpi,args->tmpi); in vcf_setter_filter() 771 ntmpi = bcf_get_info_int32(args->hdr, line, col->hdr_key_dst, &args->tmpi, &args->mtmpi); in setter_info_int() 790 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 845 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 852 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 1277 int nsrc = bcf_get_genotypes(args->files->readers[1].header,rec,&args->tmpi,&args->mtmpi); in vcf_setter_format_gt() 1562 hts_expand(int32_t,nvals*args->nsmpl_annot,args->mtmpi,args->tmpi); in setter_format_int() 1933 hts_expand(int32_t,ndst,args->mtmpi,args->tmpi); in vcf_setter_format_str() [all …]
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H A D | abuf.c | 75 int ngt, mgt, ntmpi, mtmpi, mtmp, mtmp2; member 446 hts_expand(int32_t,buf->ngt,buf->mtmpi,buf->tmpi); in _split_table_set_gt()
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H A D | filter.c | 102 int max_unpack, mtmpi, mtmpf, nsamples; member 565 tok->nvalues = bcf_get_info_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi); in filters_set_info_int() 699 if ( (nvals=bcf_get_format_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi))<0 ) in filters_set_format_int() 1113 hts_expand(int32_t, line->n_allele, flt->mtmpi, flt->tmpi); in filters_set_ac() 1765 int ngt = bcf_get_genotypes(flt->hdr, line, &flt->tmpi, &flt->mtmpi); in func_binom()
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/dports/biology/py-pysam/pysam-0.18.0/bcftools/ |
H A D | vcfannotate.c | 152 int mtmpi, mtmpf, mtmps; member 530 hts_expand(int,1,args->mtmpi,args->tmpi); in setter_filter() 568 hts_expand(int,rec->d.n_flt,args->mtmpi,args->tmpi); in vcf_setter_filter() 771 ntmpi = bcf_get_info_int32(args->hdr, line, col->hdr_key_dst, &args->tmpi, &args->mtmpi); in setter_info_int() 790 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 845 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 852 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 1277 int nsrc = bcf_get_genotypes(args->files->readers[1].header,rec,&args->tmpi,&args->mtmpi); in vcf_setter_format_gt() 1562 hts_expand(int32_t,nvals*args->nsmpl_annot,args->mtmpi,args->tmpi); in setter_format_int() 1933 hts_expand(int32_t,ndst,args->mtmpi,args->tmpi); in vcf_setter_format_str() [all …]
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H A D | vcfannotate.c.pysam.c | 154 int mtmpi, mtmpf, mtmps; member 532 hts_expand(int,1,args->mtmpi,args->tmpi); in setter_filter() 570 hts_expand(int,rec->d.n_flt,args->mtmpi,args->tmpi); in vcf_setter_filter() 773 ntmpi = bcf_get_info_int32(args->hdr, line, col->hdr_key_dst, &args->tmpi, &args->mtmpi); in setter_info_int() 792 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 847 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 854 hts_expand(int32_t,ntmpi,args->mtmpi,args->tmpi); in setter_info_int() 1279 int nsrc = bcf_get_genotypes(args->files->readers[1].header,rec,&args->tmpi,&args->mtmpi); in vcf_setter_format_gt() 1564 hts_expand(int32_t,nvals*args->nsmpl_annot,args->mtmpi,args->tmpi); in setter_format_int() 1935 hts_expand(int32_t,ndst,args->mtmpi,args->tmpi); in vcf_setter_format_str() [all …]
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H A D | abuf.c | 75 int ngt, mgt, ntmpi, mtmpi, mtmp, mtmp2; member 446 hts_expand(int32_t,buf->ngt,buf->mtmpi,buf->tmpi); in _split_table_set_gt()
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H A D | abuf.c.pysam.c | 77 int ngt, mgt, ntmpi, mtmpi, mtmp, mtmp2; member 448 hts_expand(int32_t,buf->ngt,buf->mtmpi,buf->tmpi); in _split_table_set_gt()
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H A D | filter.c | 102 int max_unpack, mtmpi, mtmpf, nsamples; member 565 tok->nvalues = bcf_get_info_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi); in filters_set_info_int() 699 if ( (nvals=bcf_get_format_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi))<0 ) in filters_set_format_int() 1113 hts_expand(int32_t, line->n_allele, flt->mtmpi, flt->tmpi); in filters_set_ac() 1765 int ngt = bcf_get_genotypes(flt->hdr, line, &flt->tmpi, &flt->mtmpi); in func_binom()
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H A D | filter.c.pysam.c | 104 int max_unpack, mtmpi, mtmpf, nsamples; member 567 tok->nvalues = bcf_get_info_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi); in filters_set_info_int() 701 if ( (nvals=bcf_get_format_int32(flt->hdr,line,tok->tag,&flt->tmpi,&flt->mtmpi))<0 ) in filters_set_format_int() 1115 hts_expand(int32_t, line->n_allele, flt->mtmpi, flt->tmpi); in filters_set_ac() 1767 int ngt = bcf_get_genotypes(flt->hdr, line, &flt->tmpi, &flt->mtmpi); in func_binom()
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/dports/science/mpqc/mpqc-2.3.1/src/bin/mpqc/ |
H A D | mpqcrun.dox | 53 <dt>grp=<tt>mtmpi</tt><dd>Use multi-threaded MPI.
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/dports/science/mpqc/mpqc-2.3.1/ |
H A D | configure.in | 156 [ --with-default-parallel Default parallism model: none, mpi, armcimpi or mtmpi], 161 elif test $DEFAULT_PARALLEL = mtmpi; then 1207 if test $DEFAULT_PARALLEL = mtmpi -a X$HAVE_MPI != Xyes; then 1208 AC_MSG_ERROR([--with-default-parallel=mtmpi but MPI not available])
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H A D | CHANGES | 109 + --with-default-parallel={mpi2,mtmpi}
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H A D | configure | 1047 --with-default-parallel Default parallism model: none, mpi, armcimpi or mtmpi 9599 if test $DEFAULT_PARALLEL = mtmpi -a X$HAVE_MPI != Xyes; then
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/dports/science/mpqc/mpqc-2.3.1/doc/ |
H A D | compile.dox | 167 specializations. Can be <tt>none</tt> for no default or <tt>mtmpi</tt>
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