/* ingenwin.h * =========================================================================== * * PUBLIC DOMAIN NOTICE * National Center for Biotechnology Information (NCBI) * * This software/database is a "United States Government Work" under the * terms of the United States Copyright Act. It was written as part of * the author's official duties as a United States Government employee and * thus cannot be copyrighted. This software/database is freely available * to the public for use. The National Library of Medicine and the U.S. * Government do not place any restriction on its use or reproduction. * We would, however, appreciate having the NCBI and the author cited in * any work or product based on this material * * Although all reasonable efforts have been taken to ensure the accuracy * and reliability of the software and data, the NLM and the U.S. * Government do not and cannot warrant the performance or results that * may be obtained by using this software or data. The NLM and the U.S. * Government disclaim all warranties, express or implied, including * warranties of performance, merchantability or fitness for any particular * purpose. * * =========================================================================== * * File Name: ingenwin.h * * Author: Fasika Aklilu * * Version Creation Date: 8/9/01 * * $Revision: 6.3 $ * * File Description: handles windowing for ingenue * * Modifications: * -------------------------------------------------------------------------- * Date Name Description of modification * ------- ---------- ----------------------------------------------------- * * * ========================================================================== */ #ifndef _INGENWIN_ #define _INGENWIN_ #ifdef __cplusplus extern "C" { #endif #ifdef WIN_GIF #include #include #include #endif #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include /****************************************************** * * defines for the Genome Viewer of UDV * ******************************************************/ #define RULERDEFHEIGHT 7 /*default height of Ruler * cyChar */ #define Ing_MaxScale 5000 /* max zoomable scale */ #define numcols_genscan 5 #define numcols_tbdl 8 #define L_T 256 #define L_ID 32 #define L_DEF 220 #define MYARGASNFILE 0 #define MYARGFASTAFILE 1 #define MYARGGENSCANFILE 2 #define MYARGBLASTFILE 3 #define MYARGSPIDFILE 4 #define MYARGTBDLFILE 5 #define MYARGBEGIN 6 #define MYARGEND 7 #define REG_INGENUE ObjMgrProcLoad(OMPROC_EDIT, "Ing_StandAlone", "Ing_StandAlone", 0, 0, 0, 0, NULL, Ing_RegIngenueProc, PROC_PRIORITY_HIGHEST) /****************************************************** * * data structures for the Genome Viewer * ******************************************************/ typedef struct gv_colorcell{ Uint1 rgb[3]; } Ing_ColorCell; typedef struct gvclickdata{/*used to select analysis in Line Viewer*/ VieweR viewer; Uint2 segID; Boolean found; } IngClickData; typedef struct ingmsginfo{ Uint2 segID; Uint1 labelmsg; Boolean bSegmented; } IngMsgInfo, PNTR IngMsgInfoPtr; typedef struct line_range{ TexT left; TexT right; ButtoN showall; }IngRange, PNTR IngRangePtr; typedef struct line_comp{ ButtoN GC; ButtoN cmpl; TexT window; TexT low; TexT high; }IngComp, PNTR IngCompPtr; typedef struct ing_snt{ SeqIdPtr sip; BioseqPtr parent; SeqLocPtr slp; Uint1Ptr PNTR pClr; Int4 left; Int4 right; SegmenT seg; BoxInfo box; Int4 scaleX; } IngSnt, PNTR IngSntPtr; typedef struct line_save{ TexT text; }IngSave, PNTR IngSavePtr; typedef struct line_info { CharPtr fields[8]; struct line_info PNTR next; } IngInfo, PNTR IngInfoPtr; typedef struct ig_fileopendata{ GrouP g_File; ButtoN OK; TexT PathName; PopuP pops; GrouP g_GI; ButtoN E_OK; TexT GI; WindoW hStart; } IngFileOpenData, PNTR IngFileOpenDataPtr; typedef struct ing_report{ WindoW hMain; VieweR Viewer; SegmenT Picture; IngGenomeViewerPtr igvp; Boolean isPrevSelected; Boolean bSummary; Int4Ptr vert_positions; Uint2 last_segID; } IngReport, PNTR IngReportPtr; /* modified from NewObjectData - sequin.h*/ typedef struct gv_objectdata { Int2 kind; /* 1 = feature creation, 2 = analysis */ ObjMgrProcPtr ompp; IngGenomeViewerPtr igvp; IteM item; Uint1 molgroup; struct gv_objectdata PNTR next; } IngObjectData, PNTR IngObjectPtr; typedef struct ig_netopen { WindoW hMain; TexT Entry; ButtoN ok; IngGenomeViewerPtr igvp; } IngNetOpen, PNTR IngNetOpenPtr; /****************************************************** * * function declarations * ******************************************************/ NLM_EXTERN Int2 LIBCALLBACK Ing_RegIngenueProc (Pointer data); extern void Ing_FileOpenProc(IngGenomeViewerPtr igvp, WindoW w); extern void Ing_ReadmRNAs(FILE *fp, IngGenomeViewerPtr igvp, CharPtr GI_list); extern void Ing_CreateDotMatrixForm(IngGenomeViewerPtr igvp, SeqAlignPtr sap, CharPtr path, CharPtr GI_list); extern void Ing_CreateSpideyForm(IngGenomeViewerPtr igvp, BioseqPtr bsp1, CharPtr path, CharPtr GI_list); extern void Ing_ReportWindow(IteM i); extern void Ing_DisplayReport(IngReportPtr Report, IngGenomeViewerPtr igvp); extern void Ing_UpdateType1(IngGenomeViewerPtr igvp, Boolean update_lines, Boolean update_control, Boolean update_range); extern void Ing_RegBlastProc(IteM i); extern void Ing_Blast2SeqsProc(IteM i); extern void Ing_QBlastProc(IteM i); extern void IngenueCheckSocketsProc (WindoW w); extern BioseqPtr Ing_GetBspFromGIOrAcc(CharPtr str); extern void Ing_GetFileForSpidey(IteM i); extern void Ing_DotDiagProc(IteM i); extern void Ing_OpenUDV(IteM i); extern Int4 Ing_AccessionToGi (CharPtr string); extern Int4 Ing_GetValue (TexT t); extern void Ing_CreateBlast2SeqsForm(IngGenomeViewerPtr igvp, BioseqPtr bsp1, CharPtr path, CharPtr GI_list); extern Boolean Ing_AttachMessageProc(IngGenomeViewerPtr igvp, Uint2 procID, Uint2 eID); extern void Ing_OpenFromFileORNetwork(IngGenomeViewerPtr igvp); extern Uint2 Ing_AttachSeqAnnotToSeqEntry (Uint2 entityID, SeqAnnotPtr sap, BioseqPtr bsp); extern void Ing_GetFromNetwork(IngGenomeViewerPtr igvp, WindoW hStart); extern Boolean Ing_DeletePrims(SegmenT seg, PrimitivE prim, Uint2 segID, Uint2 primID, Uint2 primCt, VoidPtr userdata); extern void Ing_NetOpenFromCommandline(CharPtr txt, Int4 start, Int4 stop, Int4 spi_job, CharPtr spi_filename, CharPtr spi_gilist, CharPtr spi_seqidfile, Int4 b2s_job, CharPtr b2s_filename, CharPtr b2s_gilist, CharPtr b2s_seqidfile); extern void Ing_FileOpenFromCommandline(CharPtr txt, Int4 start, Int4 stop, Int4 spi_job, CharPtr spi_filename, CharPtr spi_gilist, CharPtr spi_seqidfile, Int4 b2s_job, CharPtr b2s_filename, CharPtr b2s_gilist, CharPtr b2s_seqidfile); extern void Ing_SearchAli(SeqEntryPtr sep, Pointer mydata, Int4 index, Int2 indent); extern void Ing_HighlightReportWindow(IngReportPtr Report, Int1 highlight, Uint2 segID, Boolean rePopulate); extern void Ing_PopulateReport(IngReportPtr Report, IngGenomeViewerPtr igvp); extern void Ing_ProgressNew(IngGenomeViewerPtr igvp, CharPtr name); extern void Ing_ProgressEnd(IngGenomeViewerPtr igvp); extern void Ing_WinTimerProc(WindoW processW); extern void Ing_StartupWindow(void); extern CharPtr Ing_ParseSeqIdFile(FILE * fp); extern CharPtr Ing_StringCat(CharPtr a, CharPtr b); extern void Ing_mRNAOrExons(IteM item); extern IngGenomeViewerPtr Ing_MainDataNew(void); extern void Ing_PopulateOverviewPage(Pointer data, Boolean UpdateRuler); extern void Ing_PopulateDetailedPage(Pointer data); extern void Ing_DeleteSpidey(IngGenomeViewerPtr igvp, Int4 index); extern Uint1Ptr Ing_FillSeqBuffer(BioseqPtr bsp, SeqLocPtr slp, Int4 start, Int4 stop); extern void Ing_GetScoreAndEvalue(SeqAlignPtr sap, CharPtr PNTR eval_buff, CharPtr PNTR bit_score_buff); extern void Ing_InitAlignArrays(IngTrackAlignsPtr tap, Boolean bFirst); extern SeqLocPtr Ing_MakeLocListFromSpidp(Pointer userdata, SeqAlignPtr sap, Boolean gap_split); extern void Ing_tRNAscanMenu (MenU m); extern Int4 Ing_PrintText(CharPtr str, SegmenT seg, Int4 row, Int4 winsize, Uint1Ptr clr, Uint2 primID); extern void Ing_ReplaceAllMismatchedInLocation(IngGenomeViewerPtr igvp, SeqAlignPtr sap, Int4 start, Int4 stop, Boolean All, Boolean fillGaps, Boolean delInserts); extern void Ing_GetFileForDotMatrix(IteM i); extern Boolean Ing_DoesAlignmentCoverAll(Pointer data); #ifdef __cplusplus } #endif #endif /* ndef _INGENWIN_ */