/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/ |
H A D | faidx.c | 67 return k == kh_end(fai->hash) ? -1 : kh_val(fai->hash, k).id; in fai_name2id() 335 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 358 faidx_t *fai; in fai_read() local 416 return fai; in fai_read() 428 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 431 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 432 free(fai); in fai_destroy() 462 if ( !fai ) { in fai_build3_core() 658 return fai; in fai_load3_core() 661 if (fai) fai_destroy(fai); in fai_load3_core() [all …]
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/dports/biology/py-pysam/pysam-0.18.0/htslib/ |
H A D | faidx.c | 67 return k == kh_end(fai->hash) ? -1 : kh_val(fai->hash, k).id; in fai_name2id() 335 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 358 faidx_t *fai; in fai_read() local 416 return fai; in fai_read() 428 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 431 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 432 free(fai); in fai_destroy() 462 if ( !fai ) { in fai_build3_core() 658 return fai; in fai_load3_core() 661 if (fai) fai_destroy(fai); in fai_load3_core() [all …]
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/dports/biology/htslib/htslib-1.14/ |
H A D | faidx.c | 67 return k == kh_end(fai->hash) ? -1 : kh_val(fai->hash, k).id; in fai_name2id() 335 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 358 faidx_t *fai; in fai_read() local 416 return fai; in fai_read() 428 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 431 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 432 free(fai); in fai_destroy() 462 if ( !fai ) { in fai_build3_core() 658 return fai; in fai_load3_core() 661 if (fai) fai_destroy(fai); in fai_load3_core() [all …]
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/dports/biology/vt/vt-0.57721/lib/htslib/ |
H A D | faidx.c | 185 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 199 faidx_t *fai; in fai_read() local 236 return fai; in fai_read() 248 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 251 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 252 free(fai); in fai_destroy() 285 if ( !fai ) { in fai_build3() 404 return fai; in fai_load3() 407 if (fai) fai_destroy(fai); in fai_load3() 467 h = fai->hash; in fai_fetch() [all …]
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/dports/biology/stacks/stacks-2.4/htslib/ |
H A D | faidx.c | 185 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 199 faidx_t *fai; in fai_read() local 236 return fai; in fai_read() 248 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 251 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 252 free(fai); in fai_destroy() 285 if ( !fai ) { in fai_build3() 404 return fai; in fai_load3() 407 if (fai) fai_destroy(fai); in fai_load3() 467 h = fai->hash; in fai_fetch() [all …]
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/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/ |
H A D | faidx.c | 185 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 199 faidx_t *fai; in fai_read() local 240 return fai; in fai_read() 252 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 255 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 256 free(fai); in fai_destroy() 291 if ( !fai ) in fai_build3() 436 return fai; in fai_load3() 439 if (fai) fai_destroy(fai); in fai_load3() 502 h = fai->hash; in fai_fetch() [all …]
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/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/ |
H A D | faidx.c | 331 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 354 faidx_t *fai; in fai_read() local 412 return fai; in fai_read() 424 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 427 if (fai->bgzf) bgzf_close(fai->bgzf); in fai_destroy() 428 free(fai); in fai_destroy() 458 if ( !fai ) { in fai_build3_core() 654 return fai; in fai_load3_core() 657 if (fai) fai_destroy(fai); in fai_load3_core() 735 h = fai->hash; in fai_get_val() [all …]
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/dports/biology/seqan1/seqan-1.3.1/lib/samtools/ |
H A D | faidx.c | 143 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 155 faidx_t *fai; in fai_read() local 177 return fai; in fai_read() 183 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 186 if (fai->rz) razf_close(fai->rz); in fai_destroy() 187 free(fai); in fai_destroy() 195 faidx_t *fai; in fai_build() local 264 faidx_t *fai; in fai_load() local 302 return fai; in fai_load() 315 h = fai->hash; in fai_fetch() [all …]
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/dports/biology/ugene/ugene-40.1/src/libs_3rdparty/samtools/src/samtools/ |
H A D | faidx.c | 145 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 157 faidx_t *fai; in fai_read() local 179 return fai; in fai_read() 188 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 191 if (fai->rz) razf_close(fai->rz); in fai_destroy() 192 free(fai); in fai_destroy() 200 faidx_t *fai; in fai_build() local 269 faidx_t *fai; in fai_load() local 307 return fai; in fai_load() 320 h = fai->hash; in fai_fetch() [all …]
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/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/htslib/ |
H A D | faidx.h | 105 void fai_destroy(faidx_t *fai); 187 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 189 char *fai_fetch64(const faidx_t *fai, const char *reg, hts_pos_t *len); 203 char *fai_fetchqual(const faidx_t *fai, const char *reg, int *len); 205 char *fai_fetchqual64(const faidx_t *fai, const char *reg, hts_pos_t *len); 276 int faidx_has_seq(const faidx_t *fai, const char *seq); 280 int faidx_nseq(const faidx_t *fai); 284 const char *faidx_iseq(const faidx_t *fai, int i); 288 int faidx_seq_len(const faidx_t *fai, const char *seq); 304 const char *fai_parse_region(const faidx_t *fai, const char *s, [all …]
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/dports/biology/py-pysam/pysam-0.18.0/htslib/htslib/ |
H A D | faidx.h | 105 void fai_destroy(faidx_t *fai); 187 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 189 char *fai_fetch64(const faidx_t *fai, const char *reg, hts_pos_t *len); 203 char *fai_fetchqual(const faidx_t *fai, const char *reg, int *len); 205 char *fai_fetchqual64(const faidx_t *fai, const char *reg, hts_pos_t *len); 276 int faidx_has_seq(const faidx_t *fai, const char *seq); 280 int faidx_nseq(const faidx_t *fai); 284 const char *faidx_iseq(const faidx_t *fai, int i); 288 int faidx_seq_len(const faidx_t *fai, const char *seq); 304 const char *fai_parse_region(const faidx_t *fai, const char *s, [all …]
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/dports/biology/htslib/htslib-1.14/htslib/ |
H A D | faidx.h | 105 void fai_destroy(faidx_t *fai); 187 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 189 char *fai_fetch64(const faidx_t *fai, const char *reg, hts_pos_t *len); 203 char *fai_fetchqual(const faidx_t *fai, const char *reg, int *len); 205 char *fai_fetchqual64(const faidx_t *fai, const char *reg, hts_pos_t *len); 276 int faidx_has_seq(const faidx_t *fai, const char *seq); 280 int faidx_nseq(const faidx_t *fai); 284 const char *faidx_iseq(const faidx_t *fai, int i); 288 int faidx_seq_len(const faidx_t *fai, const char *seq); 304 const char *fai_parse_region(const faidx_t *fai, const char *s, [all …]
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/dports/biology/stringtie/stringtie-2.1.1/samtools-0.1.18/ |
H A D | faidx.c | 141 k = kh_get(s, fai->hash, fai->name[i]); in fai_save() 153 faidx_t *fai; in fai_read() local 175 return fai; in fai_read() 181 for (i = 0; i < fai->n; ++i) free(fai->name[i]); in fai_destroy() 184 if (fai->rz) razf_close(fai->rz); in fai_destroy() 185 free(fai); in fai_destroy() 193 faidx_t *fai; in fai_build() local 262 faidx_t *fai; in fai_load() local 300 return fai; in fai_load() 313 h = fai->hash; in fai_fetch() [all …]
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/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/htslib/ |
H A D | faidx.h | 100 void fai_destroy(faidx_t *fai); 167 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 178 char *fai_fetchqual(const faidx_t *fai, const char *reg, int *len); 184 int faidx_fetch_nseq(const faidx_t *fai) HTS_DEPRECATED("Please use faidx_nseq instead"); 197 char *faidx_fetch_seq(const faidx_t *fai, const char *c_name, int p_beg_i, int p_end_i, int *len); 210 char *faidx_fetch_qual(const faidx_t *fai, const char *c_name, int p_beg_i, int p_end_i, int *len); 217 int faidx_has_seq(const faidx_t *fai, const char *seq); 220 int faidx_nseq(const faidx_t *fai); 223 const char *faidx_iseq(const faidx_t *fai, int i); 226 int faidx_seq_len(const faidx_t *fai, const char *seq);
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/dports/biology/vt/vt-0.57721/lib/htslib/htslib/ |
H A D | faidx.h | 78 void fai_destroy(faidx_t *fai); 118 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 124 int faidx_fetch_nseq(const faidx_t *fai) HTS_DEPRECATED("Please use faidx_nseq instead"); 137 char *faidx_fetch_seq(const faidx_t *fai, const char *c_name, int p_beg_i, int p_end_i, int *len); 144 int faidx_has_seq(const faidx_t *fai, const char *seq); 147 int faidx_nseq(const faidx_t *fai); 150 const char *faidx_iseq(const faidx_t *fai, int i); 153 int faidx_seq_len(const faidx_t *fai, const char *seq);
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/dports/biology/stacks/stacks-2.4/htslib/htslib/ |
H A D | faidx.h | 78 void fai_destroy(faidx_t *fai); 118 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 124 int faidx_fetch_nseq(const faidx_t *fai) HTS_DEPRECATED("Please use faidx_nseq instead"); 137 char *faidx_fetch_seq(const faidx_t *fai, const char *c_name, int p_beg_i, int p_end_i, int *len); 144 int faidx_has_seq(const faidx_t *fai, const char *seq); 147 int faidx_nseq(const faidx_t *fai); 150 const char *faidx_iseq(const faidx_t *fai, int i); 153 int faidx_seq_len(const faidx_t *fai, const char *seq);
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/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/htslib/ |
H A D | faidx.h | 78 void fai_destroy(faidx_t *fai); 118 char *fai_fetch(const faidx_t *fai, const char *reg, int *len); 124 int faidx_fetch_nseq(const faidx_t *fai) HTS_DEPRECATED("Please use faidx_nseq instead"); 137 char *faidx_fetch_seq(const faidx_t *fai, const char *c_name, int p_beg_i, int p_end_i, int *len); 144 int faidx_has_seq(const faidx_t *fai, const char *seq); 147 int faidx_nseq(const faidx_t *fai); 150 const char *faidx_iseq(const faidx_t *fai, int i); 153 int faidx_seq_len(const faidx_t *fai, const char *seq);
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/dports/science/frontistr/FrontISTR-c66bdc397de319ca59a0565b3f3b1a3b33f0c50c/fistr1/src/lib/physics/ |
H A D | Elastoplastic.f90 | 113 C1 = sin(fai)/3.d0 132 a(:) = fai*dj1(:) + dj2(:) 181 +J1*sin(fai)/3.d0 367 +J1*sin(fai)/3.d0 - eqvs*cos(fai) 521 *sin(fai)*sin(sita)+4.d0*H*cos(fai)*cos(fai) 536 (4.d0*G*(1.d0+sin(fai)*sin(sita)/3.d0)+4.d0*K*sin(fai) & 542 + 2.d0*K*sin(fai) )*dlambda 544 - 2.d0*K*sin(fai) )*dlambda 566 dd= G+K*fai*fai+H*dum*dum 578 f = yd-G*dlambda+fai*(J1-K*fai*dlambda)- dum*f [all …]
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/dports/devel/flex-sdk/flex-sdk-4.6.0.23201/frameworks/projects/osmf/src/org/osmf/net/httpstreaming/f4f/ |
H A D | AdobeFragmentRunTable.as | 186 fai.fragId = fragId; 187 fai.fragDuration = curFdp.duration; 205 fai.fragId = fragId; 206 fai.fragDuration = curFdp.duration; 222 if (fai == null) 235 fai.fragId = fragId; 236 fai.fragDuration = lastFdp.duration; 250 return fai; 262 fai.fragId = fdp.firstFragment; 263 fai.fragDuration = fdp.duration; [all …]
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/dports/emulators/qemu60/qemu-6.0.0/roms/edk2/CryptoPkg/Library/OpensslLib/openssl/crypto/bn/asm/ |
H A D | parisc-mont.pl | 198 fldds 0($ap),${fai} ; ap[0,1] 226 flddx $idx($ap),${fai} ; ap[2,3] 260 flddx $idx($ap),${fai} ; ap[j,j+1] 317 flddx $idx($ap),${fai} ; ap[0,1] 350 flddx $idx($ap),${fai} ; ap[2] 381 flddx $idx($ap),${fai} ; ap[j,j+1] 450 flddx $idx($ap),${fai} ; ap[0] 581 flddx $idx($ap),${fai} ; ap[j,j+1] 649 flddx $idx($ap),${fai} ; ap[0,1] 682 flddx $idx($ap),${fai} ; ap[2,3] [all …]
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/dports/devel/cargo-c/cargo-c-0.9.6+cargo-0.58/cargo-crates/openssl-src-111.16.0+1.1.1l/openssl/crypto/bn/asm/ |
H A D | parisc-mont.pl | 198 fldds 0($ap),${fai} ; ap[0,1] 226 flddx $idx($ap),${fai} ; ap[2,3] 260 flddx $idx($ap),${fai} ; ap[j,j+1] 317 flddx $idx($ap),${fai} ; ap[0,1] 350 flddx $idx($ap),${fai} ; ap[2] 381 flddx $idx($ap),${fai} ; ap[j,j+1] 450 flddx $idx($ap),${fai} ; ap[0] 581 flddx $idx($ap),${fai} ; ap[j,j+1] 649 flddx $idx($ap),${fai} ; ap[0,1] 682 flddx $idx($ap),${fai} ; ap[2,3] [all …]
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/dports/security/vaultwarden/vaultwarden-1.23.1/cargo-crates/openssl-src-300.0.2+3.0.0/openssl/crypto/bn/asm/ |
H A D | parisc-mont.pl | 200 fldds 0($ap),${fai} ; ap[0,1] 228 flddx $idx($ap),${fai} ; ap[2,3] 262 flddx $idx($ap),${fai} ; ap[j,j+1] 319 flddx $idx($ap),${fai} ; ap[0,1] 352 flddx $idx($ap),${fai} ; ap[2] 383 flddx $idx($ap),${fai} ; ap[j,j+1] 452 flddx $idx($ap),${fai} ; ap[0] 583 flddx $idx($ap),${fai} ; ap[j,j+1] 651 flddx $idx($ap),${fai} ; ap[0,1] 684 flddx $idx($ap),${fai} ; ap[2,3] [all …]
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/dports/emulators/qemu42/qemu-4.2.1/roms/edk2/CryptoPkg/Library/OpensslLib/openssl/crypto/bn/asm/ |
H A D | parisc-mont.pl | 198 fldds 0($ap),${fai} ; ap[0,1] 226 flddx $idx($ap),${fai} ; ap[2,3] 260 flddx $idx($ap),${fai} ; ap[j,j+1] 317 flddx $idx($ap),${fai} ; ap[0,1] 350 flddx $idx($ap),${fai} ; ap[2] 381 flddx $idx($ap),${fai} ; ap[j,j+1] 450 flddx $idx($ap),${fai} ; ap[0] 581 flddx $idx($ap),${fai} ; ap[j,j+1] 649 flddx $idx($ap),${fai} ; ap[0,1] 682 flddx $idx($ap),${fai} ; ap[2,3] [all …]
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/dports/sysutils/uefi-edk2-qemu/edk2-edk2-stable201911/CryptoPkg/Library/OpensslLib/openssl/crypto/bn/asm/ |
H A D | parisc-mont.pl | 198 fldds 0($ap),${fai} ; ap[0,1] 226 flddx $idx($ap),${fai} ; ap[2,3] 260 flddx $idx($ap),${fai} ; ap[j,j+1] 317 flddx $idx($ap),${fai} ; ap[0,1] 350 flddx $idx($ap),${fai} ; ap[2] 381 flddx $idx($ap),${fai} ; ap[j,j+1] 450 flddx $idx($ap),${fai} ; ap[0] 581 flddx $idx($ap),${fai} ; ap[j,j+1] 649 flddx $idx($ap),${fai} ; ap[0,1] 682 flddx $idx($ap),${fai} ; ap[2,3] [all …]
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/dports/sysutils/vector/vector-0.10.0/cargo-crates/openssl-src-111.9.0+1.1.1g/openssl/crypto/bn/asm/ |
H A D | parisc-mont.pl | 198 fldds 0($ap),${fai} ; ap[0,1] 226 flddx $idx($ap),${fai} ; ap[2,3] 260 flddx $idx($ap),${fai} ; ap[j,j+1] 317 flddx $idx($ap),${fai} ; ap[0,1] 350 flddx $idx($ap),${fai} ; ap[2] 381 flddx $idx($ap),${fai} ; ap[j,j+1] 450 flddx $idx($ap),${fai} ; ap[0] 581 flddx $idx($ap),${fai} ; ap[j,j+1] 649 flddx $idx($ap),${fai} ; ap[0,1] 682 flddx $idx($ap),${fai} ; ap[2,3] [all …]
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