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/* bsannotvs.c
*
* ===========================================================================
*
* 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: bsannotvs.c
*
* Author: Ken Addess
*
* $Log: bsannotvs.c,v $
* Revision 6.4 1998/11/20 20:04:39 addess
* related to platform independence of VAST Search
*
* Revision 6.3 1998/11/13 15:22:47 addess
* removed some uneeded code related to align chains
*
* Revision 6.2 1998/10/14 17:44:56 addess
* for sending aligned chains from vastsearch
*
* Revision 6.1 1998/07/17 18:51:13 madej
* Allows Vast Search results to be viewed with RasMol and Kinemage.
*
*/
/* This is a copy from mmdbapi so that vastsearch alignment can be viewed with */
/* Rasmol and Kinemage */
#include <stdio.h>
#include <ncbi.h>
#include <accentr.h>
#include <objalign.h>
#include <objseq.h>
#include <objmgr.h>
#include <lsqfetch.h>
#include <netentr.h>
#include <www.h>
#include <sys/resource.h>
#include <mmdbapi.h>
#include <mmdbapi1.h>
#include "vastlocl.h"
#include "mmdblocl.h"
#include "mmdbdata.h"
#include "vast2mage.h"
#include "vastsrv.h"
#include <asnmime.h>
#include <objmime.h>
#include <strimprt.h>
Boolean InstBSAnnotSetVS(BiostrucAnnotSetPtr pbsasThis, CharPtr JobID)
{
Int2 iTest;
Int4 iMMDBId;
PDNMS pdnmsThis = NULL;
PMSD pmsdThis = NULL;
BiostrucPtr pbsThis = NULL, pbsTemp = NULL;
BiostrucIdPtr pbsidThis = NULL;
BiostrucFeatureSetPtr pbsfsThis = NULL;
BiostrucFeaturePtr pbsfThis = NULL;
PSFS psfsThis = NULL;
CharPtr szTemp;
Char szName[5];
Char AsnPath[PATH_MAX];
Char AsnName[10];
/* the Feature set either attaches to an in-memory Modelstruc */
/* or, if it specifies a new Modelstruc - attempts a retrieval */
if (pbsasThis == NULL) return FALSE;
/* grab the id out of the Biostruc-descr */
/* pbsidThis = ValNodeFindNext(pbsasThis->id,NULL,BiostrucId_mmdb_id); */
/* if (pbsidThis) only deal with the first one */
/* { */
/* iMMDBId = (Int4) pbsidThis->data.intvalue; */
/*printf("iMMDBID=%ld\n", iMMDBId); master MMDB_ID*/
/* } */
szTemp = pbsasThis->features->features->name;
szName[0] = szTemp[0];
szName[1] = szTemp[1];
szName[2] = szTemp[2];
szName[3] = szTemp[3];
szName[4] = '\0';
MasterChain[0] = ' ';
MasterChain[1] = '\0';
SlaveChain[0] = ' ';
SlaveChain[1] = '\0';
if (Chain)
{
MasterChain[0] = szTemp[4];
MasterChain[1] = '\0';
}
if (JobID)
{
AsnName[0]='\0';
StringCpy(AsnName, "/b");
StringCat(AsnName, szName);
AsnPath[0]='\0';
StringCpy(AsnPath, VSPATH);
StringCat(AsnPath, JobID);
StringCat(AsnPath, AsnName);
pbsThis = FetchBS(AsnPath, 0, ALLSIMPLEMDL, 3, POWER_VIEW);
/* This is dead code. Don't need it. Ken */
/* if (MasterChain[0] != ' ') */
/* { */
/* pbsTemp = (BiostrucPtr)PruneBiostruc(pbsThis, MasterChain);*/
/* pbsThis = NULL; */
/* pbsThis = pbsTemp; */
/* } */
}
else
{
pbsThis = FetchBiostrucPDB(szName, ALLSIMPLEMDL, 3);
SlaveChain[0] = szTemp[11];
SlaveChain[1] = '\0';
MasterChain[0] = ' ';
MasterChain[1] = '\0';
}
/*pbsThis = MMDBBiostrucGet(iMMDBId, ALLSIMPLEMDL, 3);*/
if (!pbsThis) goto nogomem;
pdnmsThis = MakeAModelstruc(pbsThis);
/* side effect is that this is now the selected modelstruc too */
if (!pdnmsThis) goto nogomem;
pmsdThis = (PMSD) pdnmsThis->data.ptrvalue;
/****** WARNING: fix this if this code is ever used to recognize Neighbor mode *********/
SetSelectedModelstruc(pdnmsThis); /* set it to selected one */
/* at this point we have annot-set, and its associated Modelstruc */
pbsfsThis = pbsasThis->features;
while (pbsfsThis) /* walk through each feature-set */
{
iTest = BiostrucAddFeature(pbsfsThis,pdnmsThis);
if (iTest < 0) goto nogomem; /* a malloc error */
if (!iTest) goto nogo; /* bad feature table error - fatal */
pbsfsThis = pbsfsThis->next;
}
/* given a sucessfully registered Biostruc-annot-set
we can now free it */
BiostrucAnnotSetFree(pbsasThis);
return TRUE;
nogomem:
nogo:
BiostrucAnnotSetFree(pbsasThis);
return FALSE;
}
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