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/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/
H A Dfaidx.c67 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 …]
/dports/biology/py-pysam/pysam-0.18.0/htslib/
H A Dfaidx.c67 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 …]
/dports/biology/htslib/htslib-1.14/
H A Dfaidx.c67 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 …]
/dports/biology/vt/vt-0.57721/lib/htslib/
H A Dfaidx.c185 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 …]
/dports/biology/stacks/stacks-2.4/htslib/
H A Dfaidx.c185 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 …]
/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/
H A Dfaidx.c185 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 …]
/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/
H A Dfaidx.c331 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 …]
/dports/biology/seqan1/seqan-1.3.1/lib/samtools/
H A Dfaidx.c143 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 …]
/dports/biology/ugene/ugene-40.1/src/libs_3rdparty/samtools/src/samtools/
H A Dfaidx.c145 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 …]
/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/htslib/
H A Dfaidx.h105 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 …]
/dports/biology/py-pysam/pysam-0.18.0/htslib/htslib/
H A Dfaidx.h105 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 …]
/dports/biology/htslib/htslib-1.14/htslib/
H A Dfaidx.h105 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 …]
/dports/biology/stringtie/stringtie-2.1.1/samtools-0.1.18/
H A Dfaidx.c141 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 …]
/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/htslib/
H A Dfaidx.h100 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);
/dports/biology/vt/vt-0.57721/lib/htslib/htslib/
H A Dfaidx.h78 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);
/dports/biology/stacks/stacks-2.4/htslib/htslib/
H A Dfaidx.h78 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);
/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/htslib/
H A Dfaidx.h78 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);
/dports/science/frontistr/FrontISTR-c66bdc397de319ca59a0565b3f3b1a3b33f0c50c/fistr1/src/lib/physics/
H A DElastoplastic.f90113 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 …]
/dports/devel/flex-sdk/flex-sdk-4.6.0.23201/frameworks/projects/osmf/src/org/osmf/net/httpstreaming/f4f/
H A DAdobeFragmentRunTable.as186 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 …]
/dports/emulators/qemu60/qemu-6.0.0/roms/edk2/CryptoPkg/Library/OpensslLib/openssl/crypto/bn/asm/
H A Dparisc-mont.pl198 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),${fai} ; ap[2,3]
[all …]
/dports/devel/cargo-c/cargo-c-0.9.6+cargo-0.58/cargo-crates/openssl-src-111.16.0+1.1.1l/openssl/crypto/bn/asm/
H A Dparisc-mont.pl198 fldds 0($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),${fai} ; ap[2,3]
[all …]
/dports/security/vaultwarden/vaultwarden-1.23.1/cargo-crates/openssl-src-300.0.2+3.0.0/openssl/crypto/bn/asm/
H A Dparisc-mont.pl200 fldds 0($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),${fai} ; ap[2,3]
[all …]
/dports/emulators/qemu42/qemu-4.2.1/roms/edk2/CryptoPkg/Library/OpensslLib/openssl/crypto/bn/asm/
H A Dparisc-mont.pl198 fldds 0($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),${fai} ; ap[2,3]
[all …]
/dports/sysutils/uefi-edk2-qemu/edk2-edk2-stable201911/CryptoPkg/Library/OpensslLib/openssl/crypto/bn/asm/
H A Dparisc-mont.pl198 fldds 0($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),${fai} ; ap[2,3]
[all …]
/dports/sysutils/vector/vector-0.10.0/cargo-crates/openssl-src-111.9.0+1.1.1g/openssl/crypto/bn/asm/
H A Dparisc-mont.pl198 fldds 0($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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