/*---------------- to check if an identical chain exist ----------------*/
Boolean FindIdSlave(Char *pSegmentThis, BiostrucFeaturePtr pbsfHead, Int4 iCount1)
{
Int4 iCount2 = 0;
if(StringNCmp(pSegmentThis, pSegmentMaster, 5) == 0){
/* only compare PDB code and Chain Id */
return TRUE;
}
else if(iCount1 == 0) {
return FALSE;
}
iCount2 = 0;
while(pbsfHead){
if(iCount2 >= iCount1) return FALSE;
if(StringNCmp(pSegmentThis, pbsfHead->name + 7, 5) == 0) {
/* only compare PDB code and Chain Id */
return TRUE;
}
iCount2++;
pbsfHead = pbsfHead->next;
}
return FALSE;
}
static void LookForSeqIDs (BioseqPtr bsp, Pointer userdata)
{
LookForIDsPtr lfip;
SeqIdPtr sip;
TextSeqIdPtr tsip;
lfip = (LookForIDsPtr) userdata;
if (ISA_na (bsp->mol)) {
lfip->isNuc = TRUE;
}
if (ISA_aa (bsp->mol)) {
lfip->isProt = TRUE;
}
for (sip = bsp->id; sip != NULL; sip = sip->next) {
switch (sip->choice) {
case SEQID_GENBANK :
case SEQID_EMBL :
case SEQID_DDBJ :
lfip->isGED = TRUE;
break;
case SEQID_TPG :
case SEQID_TPE :
case SEQID_TPD :
lfip->isTPA = TRUE;
break;
case SEQID_OTHER :
tsip = (TextSeqIdPtr) sip->data.ptrvalue;
if (tsip != NULL) {
if (StringNCmp (tsip->accession, "NC_", 3) == 0) {
lfip->isNC = TRUE;
} else if (StringNCmp (tsip->accession, "NT_", 3) == 0) {
lfip->isNTorNW = TRUE;
} else if (StringNCmp (tsip->accession, "NW_", 3) == 0) {
lfip->isNTorNW = TRUE;
}
}
break;
default :
break;
}
}
}
/*---------------------------------------------------------*/
void AssignDomainAlignedStatus(void)
{
Int4 iCount = 0, iCountStruc = 0;
PDNMS pdnmsMaster = NULL;
PMSD pmsdMaster = NULL;
BiostrucAnnotSetPtr pbsaThis = NULL;
BiostrucFeatureSetPtr pbsfsThis = NULL;
BiostrucFeaturePtr pbsfThis = NULL;
Int2 iDomainMaster = 0, iDomainSlave = 0;
pdnmsMaster = GetSelectedModelstruc();
if (!pdnmsMaster)
return;
else
pmsdMaster = pdnmsMaster->data.ptrvalue;
pbsaThis = pmsdMaster->psaStrucAlignment;
if (pbsaThis == NULL)
return;
pbsfsThis = pbsaThis->features;
iDomainMaster = (Int2) (pbsfsThis->id % 100);
for (iCount = 0; iCount < iDomainCount; iCount++) {
pbsfThis = pbsfsThis->features;
iCountStruc = 0;
while (pbsfThis) {
iDomainSlave =
(Int2) (((pbsfThis->id - pbsfThis->id % 10) / 10) % 100);
iCountStruc++;
if (domaindata[iCount]->iStrucIndex == 0) {
if (
(StringNCmp
(pbsfThis->name, domaindata[iCount]->pcPDBName,
4) == 0)
&& (pbsfThis->name[4] ==
domaindata[iCount]->pcMolName[0])) {
/* if((Char) pbsfThis->name[5] == '0'){ */
if (iDomainMaster == 0) {
domaindata[iCount]->bAligned = TRUE;
}
else if (iDomainMaster ==
domaindata[iCount]->iDomain) {
domaindata[iCount]->bAligned = TRUE;
}
}
} else if (domaindata[iCount]->iStrucIndex == iCountStruc) {
if (
(StringNCmp
(pbsfThis->name + 7, domaindata[iCount]->pcPDBName,
4) == 0)
&& (pbsfThis->name[11] ==
domaindata[iCount]->pcMolName[0])) {
if (iDomainSlave == 0) {
domaindata[iCount]->bAligned = TRUE;
} else if (iDomainSlave == domaindata[iCount]->iDomain) {
domaindata[iCount]->bAligned = TRUE;
}
}
}
pbsfThis = pbsfThis->next;
}
}
}
// Create a font object from sFileName specified
bool UIFont::Create(const tchar* sFileName)
{
if(NULL == sFileName)
{
return false;
}
void *data;
uint32 size;
tchar *desc, *pdesc;
tchar linebuf[256];
tchar buf[GT_PATH_MAX_LEN], *pbuf;
tchar chr;
int32 i, x, y, w, h, a, c;
// Setup variables
fHeight = 0.0f;
//fScale = 1.0f;
fProportion = 1.0f;
//fRot = 0.0f;
fTracking = 0.0f;
fSpacing = 1.0f;
m_pTexture = NULL;
fZ = 0.5f;
//nBlend=BLEND_COLORMUL | BLEND_ALPHABLEND | BLEND_NOZWRITE;
dwCol = 0xFFFFFFFF;
ClearMemory(&letters, sizeof(letters));
ClearMemory(&pre, sizeof(pre));
ClearMemory(&post, sizeof(post));
// Load font description
data = GOS::LoadFileIntoMemory(sFileName, &size);
if(NULL == data)
{
return false;
}
desc = new tchar[size+1];
memcpy(desc,data,size);
desc[size]=0;
free(data);
pdesc = _get_line(desc,linebuf);
if(StringCmp(linebuf, FNTHEADERTAG))
{
delete[] desc;
return false;
}
// Parse font description
while((pdesc = _get_line(pdesc,linebuf)))
{
if(!StringNCmp(linebuf, FNTBITMAPTAG, sizeof(FNTBITMAPTAG)-1 ))
{
StringCopy(buf, sFileName);
pbuf = Strrchr(buf,CTEXT('\\'));
if(!pbuf) pbuf = Strrchr(buf,CTEXT('/'));
if(!pbuf) pbuf = buf;
else pbuf++;
if(!tsscanf(linebuf, CTEXT("Bitmap = %s"), pbuf)) continue;
//m_pTexture = GameObjectCreation::CreateTexture2D(buf);
if(NULL == m_pTexture)
{
delete[] desc;
return false;
}
}
else if(!StringNCmp(linebuf, FNTCHARTAG, sizeof(FNTCHARTAG)-1 ))
{
pbuf = Strrchr(linebuf,CTEXT('='));
if(!pbuf) continue;
pbuf++;
while(*pbuf==CTEXT(' ')) pbuf++;
if(*pbuf==CTEXT('\"'))
{
pbuf++;
i=*pbuf++;
pbuf++; // skip "
}
else
{
i=0;
while((*pbuf>=CTEXT('0') && *pbuf<=CTEXT('9')) ||
(*pbuf>=CTEXT('A') && *pbuf<=CTEXT('F')) ||
(*pbuf>=CTEXT('a') && *pbuf<=CTEXT('f')))
{
chr=*pbuf;
if(chr >= CTEXT('a')) chr-=CTEXT('a')-CTEXT(':');
if(chr >= CTEXT('A')) chr-=CTEXT('A')-CTEXT(':');
chr-=CTEXT('0');
if(chr>0xF) chr=0xF;
i=(i << 4) | chr;
pbuf++;
}
if(i<0 || i>255) continue;
}
tsscanf(pbuf, CTEXT(" , %d , %d , %d , %d , %d , %d"), &x, &y, &w, &h, &a, &c);
letters[i].x = x;
letters[i].y = y;
letters[i].w = w;
letters[i].h = h;
pre[i]=(float)a;
post[i]=(float)c;
if(h>fHeight) fHeight=(float)h;
}
}
delete[] desc;
return true;
}
static Boolean LIBCALLBACK FirstVecScreenCallback (
CONN conn,
Nlm_VoidPtr userdata,
EIO_Status status
)
{
VQueuePtr cqp;
FILE *fp;
Char line [256];
Char path [PATH_MAX];
CharPtr rid;
CharPtr rtoe;
CharPtr str;
long int val;
/* read rID or failure message */
cqp = (VQueuePtr) userdata;
TmpNam (path);
fp = FileOpen (path, "w");
QUERY_CopyResultsToFile (conn, fp);
FileClose (fp);
fp = FileOpen (path, "r");
str = ReadALine (line, sizeof (line), fp);
while (str != NULL) {
if (! StringHasNoText (line)) {
if (line [0] == '>') {
if (StringNICmp (line, ">Vector", 7) == 0) {
rid = StringStr (line, "RID: ");
if (rid != NULL) {
rid += 5;
rtoe = StringStr (rid, " RTOE: ");
if (rtoe != NULL) {
*rtoe = '\0';
rtoe += 7;
StringNCpy_0 (cqp->rid, rid, sizeof (cqp->rid));
if (sscanf (rtoe, "%ld", &val) == 1) {
cqp->estTime = (time_t) val;
cqp->secondsToWait = (Int2) val + 2;
} else {
cqp->secondsToWait = 15;
}
if (cqp->secondsToWait > 15) {
cqp->secondsToWait = 15;
}
if (cqp->announceproc != NULL) {
cqp->announceproc (rid, cqp->seqid, (Int2) val);
}
}
} else if (StringStr (line, "FAILED") != NULL) {
cqp->done = TRUE;
if (cqp->resultproc != NULL) {
cqp->resultproc (NULL, cqp->userdata, cqp->rid, cqp->seqid, FALSE);
}
}
} else if (StringNICmp (line, ">Message", 8) == 0) {
str = ReadALine (line, sizeof (line), fp);
while (str != NULL && StringNCmp (line, "//", 2) != 0) {
Message (MSG_POST, "%s\n", str);
if (StringStr (line, "FAILURE") != NULL) {
cqp->done = TRUE;
}
str = ReadALine (line, sizeof (line), fp);
}
}
}
}
str = ReadALine (line, sizeof (line), fp);
}
FileClose (fp);
FileRemove (path);
return TRUE;
}
static Boolean LIBCALLBACK SecondVecScreenCallback (
CONN conn,
Nlm_VoidPtr userdata,
EIO_Status status
)
{
VQueuePtr cqp;
FILE *fp;
Char line [256];
Char path [PATH_MAX];
CharPtr rid;
CharPtr sttus;
CharPtr str;
Boolean success = FALSE;
Boolean waiting = FALSE;
/* look for waiting, failure, or success */
cqp = (VQueuePtr) userdata;
TmpNam (path);
fp = FileOpen (path, "w");
QUERY_CopyResultsToFile (conn, fp);
FileClose (fp);
fp = FileOpen (path, "r");
str = ReadALine (line, sizeof (line), fp);
while (str != NULL) {
if (! StringHasNoText (line)) {
if (line [0] == '>') {
if (StringNICmp (line, ">Vector", 7) == 0) {
rid = StringStr (line, "RID: ");
if (rid != NULL) {
rid += 5;
sttus = StringStr (rid, " Status: ");
if (sttus != NULL) {
*sttus = '\0';
sttus += 9;
if (StringCmp (cqp->rid, rid) != 0) {
ErrPostEx (SEV_ERROR, 0, 0, "RID mismatch '%s' vs '%s'", cqp->rid, rid);
cqp->done = TRUE;
} else if (StringStr (sttus, "FAILED") != NULL) {
cqp->done = TRUE;
} else if (StringStr (sttus, "unknown") != NULL) {
ErrPostEx (SEV_ERROR, 0, 0, "RID unknown '%s'", rid);
cqp->done = TRUE;
} else if (StringStr (sttus, "SUCCESS") != NULL) {
success = TRUE;
} else if (StringStr (sttus, "WAITING") != NULL) {
waiting = TRUE;
/*
Message (MSG_POST, "WAITING");
*/
}
}
}
} else if (StringNICmp (line, ">Message", 8) == 0) {
str = ReadALine (line, sizeof (line), fp);
while (str != NULL && StringNCmp (line, "//", 2) != 0) {
Message (MSG_POST, "%s\n", str);
if (StringStr (line, "FAILURE") != NULL) {
if (! waiting) {
cqp->done = TRUE;
}
}
str = ReadALine (line, sizeof (line), fp);
}
}
}
}
str = ReadALine (line, sizeof (line), fp);
}
FileClose (fp);
if (success) {
cqp->resultproc (path, cqp->userdata, cqp->rid, cqp->seqid, success);
cqp->done = TRUE;
} else if (cqp->done) {
cqp->resultproc (NULL, cqp->userdata, cqp->rid, cqp->seqid, success);
}
FileRemove (path);
return TRUE;
}
