/dports/math/libpgmath/flang-d07daf3/runtime/flang/ |
H A D | inquire.c | 569 sintp = sint + 1; in ENTF90IO() 718 *sintp++ = *exist; in ENTF90IO() 764 *sintp++ = *recl; in ENTF90IO() 928 sintp = sint + 1; in ENTF90IO() 1123 *sintp++ = *recl; in ENTF90IO() 1764 sintp = sint + 1; in ENTF90IO() 1997 *sintp++ = *id; in ENTF90IO() 2003 *sintp++ = *pos; in ENTF90IO() 2274 sintp = sint + 1; in ENTF90IO() 2504 *sintp++ = *id; in ENTF90IO() [all …]
|
/dports/biology/ncbi-toolkit/ncbi/biostruc/newvast/ |
H A D | vastchkid.c | 288 SeqIntPtr sintp = NULL; in ReplaceBioseqId() local 313 sintp = slp->data.ptrvalue; in ReplaceBioseqId() 314 if(sintp) { in ReplaceBioseqId() 315 sip_temp = sintp->id; in ReplaceBioseqId() 316 sintp->id = sip; in ReplaceBioseqId() 334 sintp = slp_mix->data.ptrvalue; in ReplaceBioseqId() 335 if(sintp) sintp->id = sip; in ReplaceBioseqId()
|
/dports/biology/ncbi-toolkit/ncbi/biostruc/ |
H A D | vastchkid.c | 285 SeqIntPtr sintp = NULL; in ReplaceBioseqId() local 310 sintp = slp->data.ptrvalue; in ReplaceBioseqId() 311 if(sintp) { in ReplaceBioseqId() 312 sip_temp = sintp->id; in ReplaceBioseqId() 313 sintp->id = sip; in ReplaceBioseqId() 331 sintp = slp_mix->data.ptrvalue; in ReplaceBioseqId() 332 if(sintp) sintp->id = sip; in ReplaceBioseqId()
|
/dports/biology/ncbi-toolkit/ncbi/tools/ |
H A D | blast_dust.c | 295 SeqIntPtr sintp; in s_SlpDust() local 330 sintp = SeqIntNew (); in s_SlpDust() 331 if (!sintp) in s_SlpDust() 338 sintp->id = SeqIdDup (id); in s_SlpDust() 339 sintp->from = reg->from; in s_SlpDust() 340 sintp->to = reg->to; in s_SlpDust() 342 (&vnp, SEQLOC_INT, sintp); in s_SlpDust() 348 slp->data.ptrvalue = (Pointer) sintp; in s_SlpDust()
|
H A D | dust.c | 603 SeqIntPtr sintp; in slpDust() local 637 sintp = SeqIntNew (); in slpDust() 638 if (!sintp) in slpDust() 645 sintp->id = SeqIdDup (id); in slpDust() 646 sintp->from = reg->from; in slpDust() 647 sintp->to = reg->to; in slpDust() 649 (vnp, SEQLOC_INT, sintp); in slpDust() 655 slp->data.ptrvalue = (Pointer) sintp; in slpDust()
|
H A D | toporg.c | 6052 SeqIntPtr sintp; in FixSeqStrandOther() local 6069 sintp = (SeqIntPtr) slp->data.ptrvalue; in FixSeqStrandOther() 6070 if (sintp != NULL && sintp->strand == Seq_strand_other) { in FixSeqStrandOther() 6071 sintp->strand = Seq_strand_plus; in FixSeqStrandOther() 6566 SeqIntPtr sintp; in MapSegFeatToMaster() local 6669 sintp = (SeqIntPtr) slp->data.ptrvalue; in MapSegFeatToMaster() 6670 if (sintp != NULL) { in MapSegFeatToMaster() 6672 if (sintp->strand == Seq_strand_minus) { in MapSegFeatToMaster() 6673 sprintf (buf, "%ld..%ld", (long) sintp->to + 1, (long) sintp->from + 1); in MapSegFeatToMaster() 6675 sprintf (buf, "%ld..%ld", (long) sintp->from + 1, (long) sintp->to + 1); in MapSegFeatToMaster()
|
/dports/biology/ncbi-toolkit/ncbi/cn3d/ |
H A D | cn3dmatn.c | 283 SeqIntPtr sintp = NULL; in MediaHL() local 292 sintp = slp->data.ptrvalue; in MediaHL() 293 if(sintp == NULL) return; in MediaHL() 294 sip = sintp->id; in MediaHL()
|
/dports/biology/ncbi-toolkit/ncbi/demo/ |
H A D | asn2all.c | 266 SeqIntPtr sintp; in MapLocationOntoDeltaParent() local 292 if (sintp != NULL) { in MapLocationOntoDeltaParent() 294 sintp->from = scontext->cumOffset + scontext->to - sintp->from; in MapLocationOntoDeltaParent() 295 sintp->to = scontext->cumOffset + scontext->to - sintp->to; in MapLocationOntoDeltaParent() 297 sintp->from = scontext->cumOffset - scontext->from + sintp->from; in MapLocationOntoDeltaParent() 298 sintp->to = scontext->cumOffset - scontext->from + sintp->to; in MapLocationOntoDeltaParent() 691 SeqIntPtr sintp; in AfpToSeqLoc() local 726 sintp = SeqIntNew (); in AfpToSeqLoc() 729 sintp->from = from - 1; in AfpToSeqLoc() 730 sintp->to = to - 1; in AfpToSeqLoc() [all …]
|
H A D | fa2htgs.c | 281 SeqIntPtr sintp; in OffsetAndLinkSeqGraph() local 301 sintp = (SeqIntPtr) slp->data.ptrvalue; in OffsetAndLinkSeqGraph() 302 if (sintp != NULL) { in OffsetAndLinkSeqGraph() 303 sintp->from += len; in OffsetAndLinkSeqGraph() 304 sintp->to += len; in OffsetAndLinkSeqGraph() 305 sintp->id = SeqIdFree (sintp->id); in OffsetAndLinkSeqGraph() 306 sintp->id = SeqIdDup (bsp->id); in OffsetAndLinkSeqGraph()
|
H A D | idcleanscan.c | 220 SeqIntPtr sintp; in DoGraphs() local 331 sintp = (SeqIntPtr) slocp->data.ptrvalue; in DoGraphs() 332 if (sintp != NULL) { in DoGraphs() 333 if (sintp->from != curroffset) { in DoGraphs() 334 …ntf (str, "SeqGraph (%ld) and SeqLit (%ld) start do not coincide", (long) sintp->from, (long) curr… in DoGraphs() 338 if (sintp->to != slp->length + curroffset - 1) { in DoGraphs() 339 …intf (str, "SeqGraph (%ld) and SeqLit (%ld) stop do not coincide", (long) sintp->to, (long) (slp->… in DoGraphs()
|
H A D | tbl2asn.c | 3182 if (sintp->from == 0 && sintp->to > bsp->length - 1) { in ReplaceOneRNA() 3773 SeqIntPtr sintp; in OffsetAndLinkSeqGraph() local 3794 if (sintp != NULL) { in OffsetAndLinkSeqGraph() 3795 sintp->from += len; in OffsetAndLinkSeqGraph() 3796 sintp->to += len; in OffsetAndLinkSeqGraph() 3797 sintp->id = SeqIdFree (sintp->id); in OffsetAndLinkSeqGraph() 5341 SeqIntPtr sintp; in ClearProtFeatStrand() local 6588 SeqIntPtr sintp; in ValidateAssemblyGapFeat() local 6598 if (sintp != NULL && sintp->from > 0 && sintp->to < bsp->length - 1) { in ValidateAssemblyGapFeat() 6599 (sintp->from)--; in ValidateAssemblyGapFeat() [all …]
|
H A D | cleanasn.c | 1495 SeqIntPtr sintp; in LengthenLoc() local 1523 sintp->to += len_diff; in LengthenLoc() 1541 sintp = SeqIntNew (); in LengthenLoc() 1548 sintp->to = spp->point; in LengthenLoc() 2537 SeqIntPtr sintp; in CleanupLocation() local 2554 if (sintp != NULL) { in CleanupLocation() 11429 SeqIntPtr sintp; in SeqToAnticodon() local 11499 sintp->if_from = IntFuzzFree (sintp->if_from); in SeqToAnticodon() 11500 sintp->if_to = IntFuzzFree (sintp->if_to); in SeqToAnticodon() 11503 sintp->from = sintp->to - 2; in SeqToAnticodon() [all …]
|
H A D | nps2gps.c | 1439 SeqIntPtr sintp; in InstantiateNCRNA() local 1709 sintp = (SeqIntPtr) slp->data.ptrvalue; in InstantiateNCRNA() 1710 if (sintp != NULL) { in InstantiateNCRNA() 1711 sintp->from -= offset; in InstantiateNCRNA() 1712 sintp->to -= offset; in InstantiateNCRNA() 1713 sintp->id = SeqIdFree (sintp->id); in InstantiateNCRNA() 1714 sintp->id = SeqIdDup (bsp->id); in InstantiateNCRNA()
|
/dports/biology/ncbi-toolkit/ncbi/api/ |
H A D | asn2ff4.c | 570 SeqIntPtr sintp; in FlatVirtLoc() local 601 sidp = sintp-> id; in FlatVirtLoc() 634 SeqIntPtr sintp; in FlatLocElement() local 704 if (is_real_id(sintp-> id, this_sidp)){ in FlatLocElement() 705 if (sintp -> strand == 2) /* minus strand */ in FlatLocElement() 708 sintp -> from, sintp -> if_from ); in FlatLocElement() 710 if ( sintp -> to >0 && (sintp -> to != sintp -> from in FlatLocElement() 711 || sintp -> if_from || sintp -> if_to )){ in FlatLocElement() 714 sintp -> to, sintp -> if_to); in FlatLocElement() 722 if (sintp -> id){ in FlatLocElement() [all …]
|
H A D | acerdapi.c | 55 SeqIntPtr sintp; in SeqGraphFromContig() local 88 sintp = SeqIntNew (); in SeqGraphFromContig() 89 sintp->from = 0; in SeqGraphFromContig() 90 sintp->to = bsp->length - 1; in SeqGraphFromContig() 91 sintp->id = SeqIdDup (bsp->id); in SeqGraphFromContig() 92 ValNodeAddPointer (&(sgp->loc), SEQLOC_INT, (Pointer) sintp); in SeqGraphFromContig()
|
H A D | asn2gnb6.c | 2226 SeqIntPtr sintp; in FlatVirtLoc() local 2241 sip = sintp->id; in FlatVirtLoc() 2514 SeqIntPtr sintp; in FlatLocElement() local 2538 sip = sintp->id; in FlatLocElement() 2545 FlatLocPoint (ajp, ffstring, sip, bsp->id, sintp->from, sintp->if_from); in FlatLocElement() 2547 (sintp->to != sintp->from || in FlatLocElement() 2552 FlatLocPoint (ajp, ffstring, NULL, bsp->id, sintp->to, sintp->if_to); in FlatLocElement() 5624 SeqIntPtr sintp; in RevCompDelta() local 5710 SeqIntPtr sintp; in FormatContigBlock() local 5737 if (sintp != NULL) { in FormatContigBlock() [all …]
|
H A D | sqnutil1.c | 3489 SeqIntPtr sintp; in ParseAnticodon() local 3561 if (sintp->from > sintp->to) { in ParseAnticodon() 3563 sintp->from = sintp->to; in ParseAnticodon() 3678 if (sintp->from > sintp->to) { in ParseCodeBreak() 3680 sintp->from = sintp->to; in ParseCodeBreak() 3744 if (sintp->from > sintp->to) { in ParseCodeBreak() 3746 sintp->from = sintp->to; in ParseCodeBreak() 4275 SeqIntPtr sintp; in HandledGBQualOnRNA() local 12097 if (sintp->from > sintp->to) { in CleanUpSeqLoc() 12099 sintp->from = sintp->to; in CleanUpSeqLoc() [all …]
|
H A D | subutil.c | 724 SeqIntPtr sintp; in ReadjustSeqLitGraphs() local 3078 SeqIntPtr sintp; in AddIntToSeqLoc() local 3086 sintp = SeqIntNew(); in AddIntToSeqLoc() 3087 sintp->from = from; in AddIntToSeqLoc() 3088 sintp->to = to; in AddIntToSeqLoc() 3089 sintp->id = SeqIdDup(sip); in AddIntToSeqLoc() 3096 sintp->if_from = ifp; in AddIntToSeqLoc() 3103 sintp->if_to = ifp; in AddIntToSeqLoc() 4038 SeqIntPtr sintp; in AddPhrapGraphInternal() local 4072 sintp = SeqIntNew (); in AddPhrapGraphInternal() [all …]
|
H A D | asn2gnb1.c | 4564 SeqIntPtr sintp; in asn2gnbk_setup_ex() local 4654 if (sintp != NULL && in asn2gnbk_setup_ex() 4655 sintp->from == 0 && in asn2gnbk_setup_ex() 4661 } else if (sintp != NULL && in asn2gnbk_setup_ex() 4662 sintp->from == 0 && in asn2gnbk_setup_ex() 4813 if (sintp != NULL) { in asn2gnbk_setup_ex() 4814 bsp = BioseqFind (sintp->id); in asn2gnbk_setup_ex() 4816 if (sintp->from < 0) { in asn2gnbk_setup_ex() 4817 sintp->from = 0; in asn2gnbk_setup_ex() 4821 if (sintp->to < 0) { in asn2gnbk_setup_ex() [all …]
|
H A D | sqnutil2.c | 3375 sintp->from = 0; in ReadPhrapQualityFC() 4128 sintp->from = from; in AddNucToContig() 4129 sintp->to = to; in AddNucToContig() 4175 sintp->id = sip; in AddNucToContig() 6958 SeqIntPtr sintp; in AddIntervalToLocationEx() local 6977 sintp->to = stop; in AddIntervalToLocationEx() 7036 if (sintp->from == sintp->to) { in AddIntervalToLocationEx() 14787 sintp->from = SeqEdRemapCoord (salp, sintp->from, TRUE, seq_len); in SeqEdRemapSeqIntLoc() 14788 sintp->to = SeqEdRemapCoord (salp, sintp->to, FALSE, seq_len); in SeqEdRemapSeqIntLoc() 21665 SeqIntPtr sintp; in ValidateAssemblyGapFeat() local [all …]
|
H A D | seqport.c | 5327 SeqIntPtr sintp; in SegRevComp() local 5350 sintp = (SeqIntPtr) slp->data.ptrvalue; in SegRevComp() 5351 if (sintp != NULL) { in SegRevComp() 5353 from = sintp->from; in SegRevComp() 5354 to = sintp->to; in SegRevComp() 5355 if (sintp->strand != Seq_strand_minus) { in SegRevComp() 5392 SeqIntPtr sintp; in DeltaRevComp() local 5411 sintp = (SeqIntPtr) slp->data.ptrvalue; in DeltaRevComp() 5412 if (sintp != NULL) { in DeltaRevComp() 5414 from = sintp->from; in DeltaRevComp() [all …]
|
H A D | asn2gnb4.c | 5326 SeqIntPtr sintp; in FF_asn2gb_www_featkey_Ex() local 5352 if (sintp != NULL) { in FF_asn2gb_www_featkey_Ex() 5353 ffrom = sintp->from + 1; in FF_asn2gb_www_featkey_Ex() 5354 fto = sintp->to + 1; in FF_asn2gb_www_featkey_Ex() 5355 sip = sintp->id; in FF_asn2gb_www_featkey_Ex() 6032 SeqIntPtr sintp; in GetOverlappingGeneInEntity() local 6048 sint.from = sintp->from; in GetOverlappingGeneInEntity() 6049 sint.to = sintp->to; in GetOverlappingGeneInEntity() 6050 sint.id = sintp->id; in GetOverlappingGeneInEntity() 6051 sint.if_from = sintp->if_from; in GetOverlappingGeneInEntity() [all …]
|
/dports/biology/ncbi-toolkit/ncbi/biostruc/cdd/ |
H A D | cddutil.c | 957 SeqIntPtr sintp; in CddHasConsensus() local 964 if (!sintp) { in CddHasConsensus() 1179 sintp->from = k; in CddCheckForRepeats() 1180 sintp->to = l; in CddCheckForRepeats() 2817 SeqIntPtr sintp; in CddAssignProfileRange() local 2836 sintp->to = iMax; in CddAssignProfileRange() 5117 for (i=sintp->from;i<=sintp->to;i++) { in CddGetFeatLocList() 5179 if (sintp->from < 0 || sintp->to < 0) return(INT4_MAX); in CddSeqLocInExpAlign() 5180 for (i=sintp->from;i<=sintp->to;i++) { in CddSeqLocInExpAlign() 5240 sintp->from = ali[sintp->from]; in CddRelocateSeqLoc() [all …]
|
/dports/biology/ncbi-toolkit/ncbi/desktop/ |
H A D | cdrgn.c | 2506 SeqIntPtr sintp; in LengthenLocation() local 2529 if (sintp->from - len_diff >= 0) { in LengthenLocation() 2530 sintp->from -= len_diff; in LengthenLocation() 2534 bsp = BioseqFind (sintp->id); in LengthenLocation() 2536 sintp->to += len_diff; in LengthenLocation() 2554 sintp = SeqIntNew (); in LengthenLocation() 2555 sintp->id = SeqIdDup (spp->id); in LengthenLocation() 2556 sintp->strand = spp->strand; in LengthenLocation() 2561 sintp->to = spp->point; in LengthenLocation() 2563 sintp->from = spp->point; in LengthenLocation() [all …]
|
/dports/biology/ncbi-toolkit/ncbi/sequin/ |
H A D | sequin7.c | 1527 SeqIntPtr sintp; in OffsetAndLinkSeqGraph() local 1548 if (sintp != NULL) { in OffsetAndLinkSeqGraph() 1549 sintp->from += len; in OffsetAndLinkSeqGraph() 1550 sintp->to += len; in OffsetAndLinkSeqGraph() 1551 sintp->id = SeqIdFree (sintp->id); in OffsetAndLinkSeqGraph() 5970 SeqIntPtr sintp; in ReadjustSingleBaseFeatures() local 5984 if (sintp != NULL) { in ReadjustSingleBaseFeatures() 5985 sintp->from = 0; in ReadjustSingleBaseFeatures() 5998 if (sintp != NULL) { in ReadjustSingleBaseFeatures() 8748 SeqIntPtr sintp; in FixLastExonLocCallback() local [all …]
|