/dports/biology/ncbi-toolkit/ncbi/api/ |
H A D | objmgr.c | 238 if (omdp != NULL && omdp->parentptr == NULL && omdp->EntityID == entityID) { in ObjMgrFindByEntityID() 489 ObjMgrRecordOmdpByEntityID (omdp->EntityID, omdp); in ObjMgrAddEntityID() 1010 for (omdp = omp->ncbidata; omdp != NULL; omdp = omdp->next) in ObjMgrExtend() 1581 omdp->freeextra ((Pointer) omdp); in ObjMgrDelete() 1642 if (omdp != NULL && omdp->bulkIndexFree) { in ObjMgrDeleteAllInRecord() 1792 ObjMgrDelete(omdp->datatype, omdp->dataptr); in ObjMgrFreeClipBoardFunc() 2336 omdp = ObjMgrFindTop(omp, omdp); in ObjMgrGetEntityIDForPointer() 2928 (int)omdp->EntityID, (int)(omdp->datatype), in ObjMgrDump() 2930 (long)(omdp->parentptr), (long)(omdp->choice), (int)(omdp->lockcnt), in ObjMgrDump() 2964 for (omdp = omp->ncbiproc; omdp != NULL; omdp = omdp->next) in ObjMgrProcExtend() [all …]
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H A D | seqmgr.c | 802 omdp = sipp[num]->omdp; in BioseqFindFunc() 833 omdp = sipp[num]->omdp; in BioseqFindFunc() 868 omdp = ObjMgrFindTop(omp, omdp); in BioseqFindFunc() 3408 if (sipp[i]->omdp == omdp) in SeqMgrDeleteFromBioseqIndex() 3532 omdp = sipp [i]->omdp; in SeqMgrDeleteIndexesInRecord() 3726 bsp->omdp = (Pointer) omdp; in SeqMgrGetOmdpForBioseq() 4371 context->omdp = omdp; in SeqMgrGetBioseqContext() 5031 context->omdp = omdp; in SeqMgrGetDesiredDescriptor() 5086 context->omdp = omdp; in SeqMgrGetDesiredAnnotDesc() 5160 bspextra->omdp = omdp; in CreateBioseqExtraBlock() [all …]
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H A D | gather.c | 1245 if (omdp == NULL || omdp->datatype != OBJ_BIOSEQ) return NULL; in SeqMgrGetNextFeatureByID() 1247 context->omdp = (Pointer) omdp; in SeqMgrGetNextFeatureByID() 1251 omdp = (ObjMgrDataPtr) context->omdp; in SeqMgrGetNextFeatureByID() 1290 context->omdp = (Pointer) omdp; in SeqMgrGetNextFeatureByID() 3958 ObjMgrLock(omdp->datatype, omdp->dataptr, FALSE); in IGCCBuild() 3966 ip->omdp = omdp; in IGCCBuild() 4282 omdp = ObjMgrFindTop(omp, omdp); in FocusSeqEntry() 4334 omdp = igcc.omdp; /* could have been reloaded */ in GatherEntity() 4492 omdp = igcc.omdp; /* could have been reloaded */ in GatherItemFunc() 5337 ObjMgrDelete(omdp->datatype, omdp->dataptr); in AttachDataProc() [all …]
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H A D | findrepl.c | 1945 ObjMgrDataPtr omdp; in StringActionInEntity() local 1951 omdp = ObjMgrGetData (entityID); in StringActionInEntity() 1952 if (omdp != NULL) { in StringActionInEntity() 1953 switch (omdp->datatype) { in StringActionInEntity() 2129 ObjMgrDataPtr omdp; in FindReplaceInEntity() local 2137 omdp = ObjMgrGetData (entityID); in FindReplaceInEntity() 2138 if (omdp != NULL) { in FindReplaceInEntity() 2139 switch (omdp->datatype) { in FindReplaceInEntity() 2272 ObjMgrDataPtr omdp; in FindStringsInEntity() local 2279 if (omdp != NULL) { in FindStringsInEntity() [all …]
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H A D | explore.h | 80 Pointer omdp; member 95 Pointer omdp; member 108 Pointer omdp; member 136 Pointer omdp; member 147 Pointer omdp; member
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H A D | edutil.c | 5143 omdp = (ObjMgrDataPtr) bsp->omdp; in SeqEdGetNextFeature() 5149 bsp->omdp = (Pointer) omdp; in SeqEdGetNextFeature() 5153 context->omdp = (Pointer) omdp; in SeqEdGetNextFeature() 5157 omdp = (ObjMgrDataPtr) context->omdp; in SeqEdGetNextFeature() 5205 context->omdp = (Pointer) omdp; in SeqEdGetNextFeature() 6844 omdp = (ObjMgrDataPtr) bsp->omdp; in SeqEdReindexAffectedFeatures() 6850 bsp->omdp = (Pointer) omdp; in SeqEdReindexAffectedFeatures() 6874 omdp = (ObjMgrDataPtr) bsp->omdp; in SeqEdReindexFeature() 6880 bsp->omdp = (Pointer) omdp; in SeqEdReindexFeature() 7195 omdp = (ObjMgrDataPtr) bsp->omdp; in SeqEdFixFeatureIndexForFeatureLocAdjust() [all …]
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H A D | seqmgr.h | 102 ObjMgrDataPtr omdp; /* the omdp containing the Bioseq */ member 305 NLM_EXTERN ObjMgrDataPtr LIBCALL BioseqReload PROTO((ObjMgrDataPtr omdp, Boolean lockit)); 750 ObjMgrDataPtr omdp; member 985 NLM_EXTERN Pointer SeqMgrGetExtraDataForOmdp (ObjMgrDataPtr omdp);
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H A D | lsqfetch.c | 372 OMUserDataPtr omdp; in FastaLibBioseqFetchFunc() local 389 omdp = ObjMgrGetUserData(ompcp->input_entityID, ompp->procid, OMPROC_FETCH, 0); in FastaLibBioseqFetchFunc() 390 if(omdp != NULL) in FastaLibBioseqFetchFunc() 391 seq_name = omdp->userdata.ptrvalue; in FastaLibBioseqFetchFunc() 425 omdp->userdata.ptrvalue = StringSave(seq_name); in FastaLibBioseqFetchFunc() 426 omdp->freefunc = FreeSeqName; in FastaLibBioseqFetchFunc() 691 OMUserDataPtr omdp; in FileBioseqFetchFunc() local 708 if(omdp != NULL) in FileBioseqFetchFunc() 709 file_name = omdp->userdata.ptrvalue; in FileBioseqFetchFunc() 768 omdp->userdata.ptrvalue = StringSave(file_name); in FileBioseqFetchFunc() [all …]
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H A D | objmgr.h | 854 NLM_EXTERN Uint2 LIBCALL ObjMgrAddEntityID PROTO((ObjMgrPtr omp, ObjMgrDataPtr omdp)); 864 NLM_EXTERN Boolean LIBCALL ObjMgrWholeEntity PROTO((ObjMgrDataPtr omdp, Uint4 itemID, Uint2 itemtyp… 1172 …ERN void LIBCALL ObjMgrAddIndexOnEntityID PROTO((ObjMgrPtr omp,Uint2 entityID,ObjMgrDataPtr omdp));
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H A D | gather.h | 306 ObjMgrDataPtr omdp; /* top level omdp in entity */ member
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H A D | asn2ff3.c | 3515 ObjMgrDataPtr omdp; in GetProtRefComment() local 3655 omdp = dcontext.omdp; in GetProtRefComment() 3656 if (omdp != NULL) { in GetProtRefComment() 3657 gc.parenttype = omdp->datatype; in GetProtRefComment() 3658 gc.parentitem = omdp->dataptr; in GetProtRefComment() 3674 omdp = ObjMgrGetData (ajp->entityID); in GetProtRefComment() 3675 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in GetProtRefComment() 3676 ssp = (SeqSubmitPtr) omdp->dataptr; in GetProtRefComment()
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H A D | asn2gnb5.c | 3526 ObjMgrDataPtr omdp; in FormatReferenceBlock() local 3631 omdp = ObjMgrGetData (rbp->entityID); in FormatReferenceBlock() 3632 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in FormatReferenceBlock() 3633 ssp = (SeqSubmitPtr) omdp->dataptr; in FormatReferenceBlock()
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H A D | samutil.c | 178 ObjMgrData *omdp; in SAM_MakeViewerFree() local 185 omdp = ObjMgrFindByData(omp, data); in SAM_MakeViewerFree() 186 if(omdp == NULL) ThrowError; in SAM_MakeViewerFree() 188 entityID = omdp->EntityID; in SAM_MakeViewerFree()
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H A D | valid.c | 3460 ObjMgrDataPtr omdp; in ValidateFeatIDs() local 3465 if (omdp == NULL) return; in ValidateFeatIDs() 4800 ObjMgrDataPtr omdp; in ValidateSeqEntry() local 4862 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in ValidateSeqEntry() 5043 if (omdp == NULL || omdp->datatype != OBJ_SEQSUB) { in ValidateSeqEntry() 18193 if (omdp == NULL) { in MarkMrnasFromCDSXrefs() 18264 context.omdp = (Pointer) omdp; in MarkMrnasFromCDSXrefs() 20757 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in ValidateBioseqContextIndexed() 21670 ObjMgrDataPtr omdp; in ValidateBioseqContext() local 22094 omdp = NULL; in ValidateBioseqContext() [all …]
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H A D | tofasta.c | 4237 ObjMgrDataPtr omdp; in SimpleSegSeqTitle() local 4253 omdp = (ObjMgrDataPtr) bsp->omdp; in SimpleSegSeqTitle() 4254 if (omdp == NULL) return NULL; in SimpleSegSeqTitle() 4256 omdp = ObjMgrFindTop (omp, omdp); in SimpleSegSeqTitle() 4258 if (omdp == NULL) return NULL; in SimpleSegSeqTitle()
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/dports/biology/ncbi-toolkit/ncbi/desktop/ |
H A D | vsm.c | 854 ObjMgrDataPtr omdp; in VSeqMgrPasteProc() local 862 if (omdp == NULL) in VSeqMgrPasteProc() 934 ObjMgrDataPtr omdp; in VSeqMgrMoveProc() local 942 if (omdp == NULL) in VSeqMgrMoveProc() 1773 omdp = *omdpp; in VSeqMgrPopulateMain() 1774 if ((omdp->parentptr == NULL) && (omdp->EntityID != 0)) in VSeqMgrPopulateMain() 1886 omdp = *omdpp; in VSMWinDelete() 2818 ObjMgrDataPtr omdp; in VSMAddPictureToEntity() local 2851 vnp = omdp->choice; in VSMAddPictureToEntity() 2852 ptr = omdp->dataptr; in VSMAddPictureToEntity() [all …]
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H A D | vsmfile.c | 1204 ObjMgrDataPtr omdp; in SaveSeqLocEntity() local 1212 omdp = ObjMgrGetDataStruct (ssp->omp, entityID); in SaveSeqLocEntity() 1213 if (omdp == NULL) return; in SaveSeqLocEntity() 1214 if (omdp->choicetype == OBJ_SEQENTRY || omdp->datatype != OBJ_SEQLOC) in SaveSeqLocEntity() 1226 (*(omtp->asnwrite))(omdp->dataptr, ssp->aip, NULL); in SaveSeqLocEntity()
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H A D | seqsub.c | 2311 ObjMgrDataPtr omdp; in SubmitBlockGenFunc() local 2329 omdp = ObjMgrGetData (ompcp->input_entityID); in SubmitBlockGenFunc() 2330 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in SubmitBlockGenFunc() 2331 ssp = (SeqSubmitPtr) omdp->dataptr; in SubmitBlockGenFunc() 3250 ObjMgrDataPtr omdp; in SeqSubmitFromTemplateEditor() local 3320 omdp = ObjMgrGetData (entityID); in SeqSubmitFromTemplateEditor()
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H A D | gphview.c | 57 extern SegmenT VSMEntityDraw PROTO((ObjMgrDataPtr omdp, VSMPictPtr vsmpp, VSeqMgrPtr vsmp)); 1913 ObjMgrDataPtr omdp; in PopulateDesktop() local 1942 omdp = ObjMgrGetData (entityID); in PopulateDesktop() 1958 seg = VSMEntityDraw (omdp, vsmpp, vsmp); in PopulateDesktop()
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/dports/biology/ncbi-toolkit/ncbi/network/id1arch/ |
H A D | accid1.c | 254 OMUserDataPtr omdp; in s_ID1BioseqFetchFunc() local 281 omdp = ObjMgrGetUserData(ompcp->input_entityID,ompp->procid, OMPROC_FETCH, 0); in s_ID1BioseqFetchFunc() 282 if (omdp != NULL) { in s_ID1BioseqFetchFunc() 283 gi = omdp->userdata.intvalue; in s_ID1BioseqFetchFunc() 317 omdp = ObjMgrAddUserData(ompcp->output_entityID, ompp->procid, OMPROC_FETCH, 0); in s_ID1BioseqFetchFunc() 318 omdp->userdata.intvalue = gi; in s_ID1BioseqFetchFunc()
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/dports/biology/ncbi-toolkit/ncbi/access/ |
H A D | pmfapi.c | 2273 OMUserDataPtr omdp = NULL; in PubSeqBioseqFetchFunc() local 2321 if (omdp != NULL) { in PubSeqBioseqFetchFunc() 2322 uid = omdp->userdata.intvalue; in PubSeqBioseqFetchFunc() 2391 if (omdp != NULL) { in PubSeqBioseqFetchFunc() 2405 OMUserDataPtr omdp = NULL; in TraceBioseqFetchFunc() local 2421 if (omdp != NULL) { in TraceBioseqFetchFunc() 2446 if (omdp != NULL) { in TraceBioseqFetchFunc() 2468 OMUserDataPtr omdp = NULL; in SRABioseqFetchFunc() local 2483 if (omdp != NULL) { in SRABioseqFetchFunc() 2508 if (omdp != NULL) { in SRABioseqFetchFunc() [all …]
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/dports/biology/ncbi-toolkit/ncbi/cdromlib/ |
H A D | accentr.c | 3092 OMUserDataPtr omdp; local 3123 omdp = ObjMgrGetUserData(ompcp->input_entityID,ompp->procid, OMPROC_FETCH, 0); 3124 if (omdp != NULL) 3126 efudp = (EntrezFetchUserDataPtr)(omdp->userdata.ptrvalue); 3172 omdp = ObjMgrAddUserData(ompcp->output_entityID, ompp->procid, OMPROC_FETCH, 0); 3174 omdp->userdata.ptrvalue = efudp; 3177 omdp->freefunc = EntrezFetchFreeFunc;
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/dports/biology/ncbi-toolkit/ncbi/sequin/ |
H A D | sequin4.c | 6897 ObjMgrDataPtr omdp; in OrfViewerMsgFunc() local 6908 if (omdp != NULL) { in OrfViewerMsgFunc() 7508 } else if (omdp->parentptr == NULL) { in ReportOnEntity() 7515 if (omdp->datatype < OBJ_MAX) { in ReportOnEntity() 7518 bsp = (BioseqPtr) omdp->dataptr; in ReportOnEntity() 7534 if (omdp->tempload < 3) { in ReportOnEntity() 7573 ObjMgrDataPtr omdp; in DesktopReportFunc() local 7599 omdp = *omdpp; in DesktopReportFunc() 7600 if (omdp->parentptr == NULL) { in DesktopReportFunc() 7605 omdp = *omdpp; in DesktopReportFunc() [all …]
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H A D | sequin1.c | 636 ObjMgrDataPtr omdp; in WriteTheEntityID() local 938 ObjMgrDataPtr omdp; in SubtoolModeTimerProc() local 987 ObjMgrDataPtr omdp; in BackupModeTimerProc() local 1088 ObjMgrDataPtr omdp; in ReturnSubmissionEmailAddress() local 1097 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in ReturnSubmissionEmailAddress() 1764 ObjMgrFree(omdp->datatype, omdp->dataptr); in SmartnetDoneFuncEx() 1874 ObjMgrFree(omdp->datatype, omdp->dataptr); in SmartnetDoneFuncEx() 5712 if (omdp != NULL && omdp->datatype == OBJ_SEQSUB) { in EnableEditSeqAlignAndSubItems() 8411 if (omdp != NULL && omdp->datatype != OBJ_SEQSUB) { in BioseqViewFormMenus() 10787 if (omdp != NULL && omdp->datatype == OBJ_BIOSEQ) { in ObjMgrReport() [all …]
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/dports/biology/ncbi-toolkit/ncbi/object/ |
H A D | objseq.h | 438 Pointer omdp; /* internal objmgrdataptr to speed up indexed functions */ member
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