static void dottup_stretchplot(AjPGraph graph, const AjPList matchlist,
const AjPSeq seq1, const AjPSeq seq2,
ajint begin1, ajint begin2,
ajint end1, ajint end2)
{
EmbPWordMatch wmp = NULL;
float xa[1];
float ya[2];
AjPGraphdata gdata = NULL;
AjPStr tit = NULL;
float x1;
float y1;
float x2;
float y2;
AjIList iter = NULL;
tit = ajStrNew();
ajFmtPrintS(&tit,"%S",ajGraphGetTitleS(graph));
gdata = ajGraphdataNewI(1);
xa[0] = (float)begin1;
ya[0] = (float)begin2;
ajGraphSetTitleC(graph,ajStrGetPtr(tit));
ajGraphSetXlabelC(graph,ajSeqGetNameC(seq1));
ajGraphSetYlabelC(graph,ajSeqGetNameC(seq2));
ajGraphdataSetTypeC(gdata,"2D Plot Float");
ajGraphdataSetMinmax(gdata,(float)begin1,(float)end1,(float)begin2,
(float)end2);
ajGraphdataSetTruescale(gdata,(float)begin1,(float)end1,(float)begin2,
(float)end2);
ajGraphxySetXstartF(graph,(float)begin1);
ajGraphxySetXendF(graph,(float)end1);
ajGraphxySetYstartF(graph,(float)begin2);
ajGraphxySetYendF(graph,(float)end2);
ajGraphxySetXrangeII(graph,begin1,end1);
ajGraphxySetYrangeII(graph,begin2,end2);
if(matchlist)
{
iter = ajListIterNewread(matchlist);
while((wmp = ajListIterGet(iter)))
{
x1 = x2 = (float) (wmp->seq1start + begin1);
y1 = y2 = (float) (wmp->seq2start + begin2);
x2 += (float) wmp->length-1;
y2 += (float) wmp->length-1;
ajGraphAddLine(graph,x1,y1,x2,y2,0);
}
ajListIterDel(&iter);
}
ajGraphdataAddXY(gdata,xa,ya);
ajGraphDataReplace(graph,gdata);
ajGraphxyDisplay(graph,ajFalse);
ajGraphicsClose();
ajStrDel(&tit);
return;
}
int main(int argc, char **argv)
{
AjPList list = NULL;
AjPSeq seq;
AjPSeq seq2;
AjPStr aa0str = 0;
AjPStr aa1str = 0;
const char *s1;
const char *s2;
char *strret = NULL;
ajuint i;
ajuint j;
ajuint k;
ajint l;
ajint abovethresh;
ajint total;
ajint starti = 0;
ajint startj = 0;
ajint windowsize;
float thresh;
AjPGraph graph = NULL;
AjPGraph xygraph = NULL;
float flen1;
float flen2;
ajuint len1;
ajuint len2;
AjPTime ajtime = NULL;
time_t tim;
AjBool boxit=AJTRUE;
/* Different ticks as they need to be different for x and y due to
length of string being important on x */
ajuint acceptableticksx[]=
{
1,10,50,100,500,1000,1500,10000,
500000,1000000,5000000
};
ajuint acceptableticks[]=
{
1,10,50,100,200,500,1000,2000,5000,10000,15000,
500000,1000000,5000000
};
ajint numbofticks = 10;
float xmargin;
float ymargin;
float ticklen;
float tickgap;
float onefifth;
float k2;
float max;
char ptr[10];
AjPMatrix matrix = NULL;
ajint** sub;
AjPSeqCvt cvt;
AjPStr subt = NULL;
ajint b1;
ajint b2;
ajint e1;
ajint e2;
AjPStr se1;
AjPStr se2;
ajint ithresh;
AjBool stretch;
PPoint ppt = NULL;
float xa[1];
float ya[1];
AjPGraphdata gdata=NULL;
AjPStr tit = NULL;
AjIList iter = NULL;
float x1 = 0.;
float x2 = 0.;
float y1 = 0.;
float y2 = 0.;
ajuint tui;
se1 = ajStrNew();
se2 = ajStrNew();
embInit("dotmatcher", argc, argv);
seq = ajAcdGetSeq("asequence");
seq2 = ajAcdGetSeq("bsequence");
stretch = ajAcdGetToggle("stretch");
graph = ajAcdGetGraph("graph");
xygraph = ajAcdGetGraphxy("xygraph");
windowsize = ajAcdGetInt("windowsize");
ithresh = ajAcdGetInt("threshold");
matrix = ajAcdGetMatrix("matrixfile");
sub = ajMatrixGetMatrix(matrix);
cvt = ajMatrixGetCvt(matrix);
thresh = (float)ithresh;
ajtime = ajTimeNew();
tim = time(0);
ajTimeSetLocal(ajtime, tim);
b1 = ajSeqGetBegin(seq);
b2 = ajSeqGetBegin(seq2);
e1 = ajSeqGetEnd(seq);
e2 = ajSeqGetEnd(seq2);
len1 = ajSeqGetLen(seq);
len2 = ajSeqGetLen(seq2);
tui = ajSeqGetLen(seq);
flen1 = (float) tui;
tui = ajSeqGetLen(seq2);
flen2 = (float) tui;
ajStrAssignSubC(&se1,ajSeqGetSeqC(seq),b1-1,e1-1);
ajStrAssignSubC(&se2,ajSeqGetSeqC(seq2),b2-1,e2-1);
ajSeqAssignSeqS(seq,se1);
ajSeqAssignSeqS(seq2,se2);
s1 = ajStrGetPtr(ajSeqGetSeqS(seq));
s2 = ajStrGetPtr(ajSeqGetSeqS(seq2));
aa0str = ajStrNewRes(1+len1); /* length plus trailing blank */
aa1str = ajStrNewRes(1+len2);
list = ajListNew();
for(i=0;i<len1;i++)
ajStrAppendK(&aa0str,(char)ajSeqcvtGetCodeK(cvt, *s1++));
for(i=0;i<len2;i++)
ajStrAppendK(&aa1str,(char)ajSeqcvtGetCodeK(cvt, *s2++));
max = (float)len1;
if(len2 > max)
max = (float) len2;
xmargin = ymargin = max *(float)0.15;
ticklen = xmargin*(float)0.1;
onefifth = xmargin*(float)0.2;
subt = ajStrNewC((strret=
ajFmtString("(windowsize = %d, threshold = %3.2f %D)",
windowsize,thresh,ajtime)));
if(!stretch)
{
if( ajStrGetLen(ajGraphGetSubtitleS(graph)) <=1)
ajGraphSetSubtitleS(graph,subt);
ajGraphOpenWin(graph, (float)0.0-ymargin,(max*(float)1.35)+ymargin,
(float)0.0-xmargin,(float)max+xmargin);
ajGraphicsDrawposTextAtmid(flen1*(float)0.5,
(float)0.0-(xmargin/(float)2.0),
ajGraphGetXlabelC(graph));
ajGraphicsDrawposTextAtlineJustify((float)0.0-(xmargin*(float)0.75),
flen2*(float)0.5,
(float)0.0-(xmargin*(float)0.75),flen1,
ajGraphGetYlabelC(graph),0.5);
ajGraphicsSetCharscale(0.5);
}
s1= ajStrGetPtr(aa0str);
s2 = ajStrGetPtr(aa1str);
for(j=0; (ajint)j < (ajint)len2-windowsize;j++)
{
i =0;
total = 0;
abovethresh =0;
k = j;
for(l=0;l<windowsize;l++)
total = total + sub[(ajint)s1[i++]][(ajint)s2[k++]];
if(total >= thresh)
{
abovethresh=1;
starti = i-windowsize;
startj = k-windowsize;
}
while(i < len1 && k < len2)
{
total = total - sub[(ajint)s1[i-windowsize]]
[(ajint)s2[k-windowsize]];
total = total + sub[(ajint)s1[i]][(ajint)s2[k]];
if(abovethresh)
{
if(total < thresh)
{
abovethresh = 0;
/* draw the line */
dotmatcher_pushpoint(&list,(float)starti,(float)startj,
(float)i-1,(float)k-1,stretch);
}
}
else if(total >= thresh)
{
starti = i-windowsize;
startj = k-windowsize;
abovethresh= 1;
}
i++;
k++;
}
if(abovethresh)
/* draw the line */
dotmatcher_pushpoint(&list,(float)starti,(float)startj,
(float)i-1,(float)k-1,
stretch);
}
for(i=0; (ajint)i < (ajint)len1-windowsize;i++)
{
j = 0;
total = 0;
abovethresh =0;
k = i;
for(l=0;l<windowsize;l++)
total = total + sub[(ajint)s1[k++]][(ajint)s2[j++]];
if(total >= thresh)
{
abovethresh=1;
starti = k-windowsize;
startj = j-windowsize;
}
while(k < len1 && j < len2)
{
total = total - sub[(ajint)s1[k-windowsize]]
[(ajint)s2[j-windowsize]];
total = total + sub[(ajint)s1[k]][(ajint)s2[j]];
if(abovethresh)
{
if(total < thresh)
{
abovethresh = 0;
/* draw the line */
dotmatcher_pushpoint(&list,(float)starti,(float)startj,
(float)k-1,(float)j-1,stretch);
}
}
else if(total >= thresh)
{
starti = k-windowsize;
startj = j-windowsize;
abovethresh= 1;
}
j++;
k++;
}
if(abovethresh)
/* draw the line */
dotmatcher_pushpoint(&list,(float)starti,(float)startj,
(float)k-1,(float)j-1,
stretch);
}
if(boxit && !stretch)
{
ajGraphicsDrawposRect(0.0,0.0,flen1, flen2);
i=0;
while(acceptableticksx[i]*numbofticks < len1)
i++;
if(i<=13)
tickgap = (float)acceptableticksx[i];
else
tickgap = (float)acceptableticksx[10];
ticklen = xmargin*(float)0.1;
onefifth = xmargin*(float)0.2;
if(len2/len1 > 10 )
{
/* if a lot smaller then just label start and end */
ajGraphicsDrawposLine((float)0.0,(float)0.0,(float)0.0,(float)0.0-ticklen);
sprintf(ptr,"%d",b1-1);
ajGraphicsDrawposTextAtmid((float)0.0,(float)0.0-(onefifth),ptr);
ajGraphicsDrawposLine(flen1,(float)0.0,
flen1,(float)0.0-ticklen);
sprintf(ptr,"%d",len1+b1-1);
ajGraphicsDrawposTextAtmid(flen1,(float)0.0-(onefifth),ptr);
}
else
for(k2=0.0;k2<len1;k2+=tickgap)
{
ajGraphicsDrawposLine(k2,(float)0.0,k2,(float)0.0-ticklen);
sprintf(ptr,"%d",(ajint)k2+b1-1);
ajGraphicsDrawposTextAtmid(k2,(float)0.0-(onefifth),ptr);
}
i = 0;
while(acceptableticks[i]*numbofticks < len2)
i++;
tickgap = (float)acceptableticks[i];
ticklen = ymargin*(float)0.01;
onefifth = ymargin*(float)0.02;
if(len1/len2 > 10 )
{
/* if a lot smaller then just label start and end */
ajGraphicsDrawposLine((float)0.0,(float)0.0,(float)0.0-ticklen,(float)0.0);
sprintf(ptr,"%d",b2-1);
ajGraphicsDrawposTextAtend((float)0.0-(onefifth),(float)0.0,ptr);
ajGraphicsDrawposLine((float)0.0,flen2,(float)0.0-ticklen,
flen2);
sprintf(ptr,"%d",len2+b2-1);
ajGraphicsDrawposTextAtend((float)0.0-(onefifth),flen2,ptr);
}
else
for(k2=0.0;k2<len2;k2+=tickgap)
{
ajGraphicsDrawposLine((float)0.0,k2,(float)0.0-ticklen,k2);
sprintf(ptr,"%d",(ajint)k2+b2-1);
ajGraphicsDrawposTextAtend((float)0.0-(onefifth),k2,ptr);
}
}
if(!stretch)
ajGraphicsClose();
else /* the xy graph for -stretch */
{
tit = ajStrNew();
ajFmtPrintS(&tit,"%S",ajGraphGetTitleS(xygraph));
gdata = ajGraphdataNewI(1);
xa[0] = (float)b1;
ya[0] = (float)b2;
ajGraphSetTitleC(xygraph,ajStrGetPtr(tit));
ajGraphSetXlabelC(xygraph,ajSeqGetNameC(seq));
ajGraphSetYlabelC(xygraph,ajSeqGetNameC(seq2));
ajGraphdataSetTypeC(gdata,"2D Plot Float");
ajGraphdataSetTitleS(gdata,subt);
ajGraphdataSetMinmax(gdata,(float)b1,(float)e1,(float)b2,
(float)e2);
ajGraphdataSetTruescale(gdata,(float)b1,(float)e1,(float)b2,
(float)e2);
ajGraphxySetXstartF(xygraph,(float)b1);
ajGraphxySetXendF(xygraph,(float)e1);
ajGraphxySetYstartF(xygraph,(float)b2);
ajGraphxySetYendF(xygraph,(float)e2);
ajGraphxySetXrangeII(xygraph,b1,e1);
ajGraphxySetYrangeII(xygraph,b2,e2);
if(list)
{
iter = ajListIterNewread(list);
while((ppt = ajListIterGet(iter)))
{
x1 = ppt->x1+b1-1;
y1 = ppt->y1+b2-1;
x2 = ppt->x2+b1-1;
y2 = ppt->y2+b2-1;
ajGraphAddLine(xygraph,x1,y1,x2,y2,0);
AJFREE(ppt);
}
ajListIterDel(&iter);
}
ajGraphdataAddXY(gdata,xa,ya);
ajGraphDataReplace(xygraph,gdata);
ajGraphxyDisplay(xygraph,ajFalse);
ajGraphicsClose();
ajStrDel(&tit);
}
ajListFree(&list);
ajSeqDel(&seq);
ajSeqDel(&seq2);
ajGraphxyDel(&graph);
ajGraphxyDel(&xygraph);
ajMatrixDel(&matrix);
ajTimeDel(&ajtime);
/* deallocate memory */
ajStrDel(&aa0str);
ajStrDel(&aa1str);
ajStrDel(&se1);
ajStrDel(&se2);
ajStrDel(&subt);
AJFREE(strret); /* created withing ajFmtString */
embExit();
return 0;
}
int main(int argc, char **argv)
{
AjPGraphdata graphdata;
ajint i;
AjPGraph mult;
AjBool overlap;
embInit("testplot", argc, argv);
mult = ajAcdGetGraphxy("graph");
ipoints = ajAcdGetInt("points");
overlap = ajAcdGetBoolean("overlap");
ajUser("Plotting sin, cos and tan for %d degrees",ipoints);
/* Create multiple graph store for a set of graphs */
/* This is used for drawing several graphs in one window */
/* create a new graph */
graphdata = ajGraphdataNewI(ipoints);
/* add graph to list in a multiple graph */
ajGraphDataAdd(mult,graphdata);
/* set overlap based on bool*/
ajGraphxySetflagOverlay(mult, overlap);
/* create the point values for this graph */
for(i=0;i<ipoints; i++)
{
graphdata->x[i] = (float)i;
graphdata->y[i] = sin(ajCvtDegToRad(i));
}
/* embGraphSetData(graphdata,&array[0][0]);*/
ajGraphdataSetYlabelC(graphdata,"SINE(degrees)");
ajGraphdataSetXlabelC(graphdata,"degrees");
ajGraphdataSetTitleC(graphdata,"hello");
ajGraphdataSetColour(graphdata,GREEN);
if(!overlap)
{
ajGraphdataAddposRect(graphdata,70.0,0.55,80.0,0.45,GREEN,1);
ajGraphdataAddposTextC(graphdata,82.0,0.5,GREEN,"Sine");
}
graphdata = ajGraphdataNewI(ipoints);
ajGraphDataAdd(mult,graphdata);
for(i=0;i<ipoints; i++)
{
graphdata->x[i] = (float)i;
graphdata->y[i] = cos(ajCvtDegToRad((float)i));
}
ajGraphdataSetXlabelC(graphdata,"degrees");
ajGraphdataSetYlabelC(graphdata,"COS(degrees)");
ajGraphdataSetTitleC(graphdata,"hello");
ajGraphdataSetColour(graphdata,RED);
if(!overlap)
{
ajGraphdataAddposLine(graphdata,5.0,0.1,15.0,0.1,RED);
ajGraphdataAddposTextC(graphdata,17.0,0.1,RED,"Cosine");
}
/* now set larger axis than needed */
ajGraphdataSetMinmax(graphdata,0.0,(float)ipoints,-0.5,1.5);
graphdata = ajGraphdataNewI(ipoints);
ajGraphdataSetLinetype(graphdata, 3);
ajGraphDataAdd(mult,graphdata);
for(i=0;i<ipoints; i++)
{
graphdata->x[i] = (float)i;
graphdata->y[i] = (tan(ajCvtDegToRad(i))*0.2);
}
ajGraphdataSetXlabelC(graphdata,"degrees");
ajGraphdataSetYlabelC(graphdata,"TAN(degrees)");
ajGraphdataSetTitleC(graphdata,"hello");
ajGraphdataSetLinetype(graphdata, 2);
ajGraphdataSetColour(graphdata,BLUE);
if(!overlap)
{
ajGraphdataAddposRect(graphdata,5.0,9.0,15.0,8.5,BLUE,0);
ajGraphdataAddposTextC(graphdata,17.0,8.75,BLUE,"Tangent");
}
ajGraphSetYlabelC(mult,"sin,cos,tan");
ajGraphSetXlabelC(mult,"degrees");
ajGraphSetTitleC(mult,"Trig functions");
ajGraphxySetYstartF(mult,0.0);
ajGraphxySetYendF(mult,2.0);
if(overlap)
{
ajGraphAddRect(mult,5.0,9.0,15.0,8.5,BLUE,0);
ajGraphAddRect(mult,5.0,8.0,15.0,7.5,GREEN,1);
ajGraphAddLine(mult,5.0,6.75,15.0,6.75,RED);
ajGraphAddTextC(mult,17.0,8.75,BLUE,"Tangent");
ajGraphAddTextC(mult,17.0,7.75,GREEN,"Sine");
ajGraphAddTextC(mult,17.0,6.75,RED,"Cosine");
}
ajGraphxyDisplay(mult,AJTRUE);
ajGraphxyDel(&mult);
embExit();
return 0;
}