int AdvancePosToAlignmentEnd(std::vector<char> &ops, int &pos) {
int start = pos;
while (pos < ops.size() and ops[pos] != 'N' and !IsClipping(ops[pos])) {
pos++;
}
return pos - start;
}
int AdvancePastClipping(std::vector<int> &lengths,
std::vector<char> &ops,
int &opIndex,
int &numSoftClipped) {
int numClipped = 0;
numSoftClipped = 0;
while (opIndex < lengths.size() and IsClipping(ops[opIndex])) {
numClipped += lengths[opIndex];
if (ops[opIndex] == 'S') {
numSoftClipped+= lengths[opIndex];
}
++opIndex;
}
return numClipped;
}
void
PDFWriter::DrawString(char *string, float escapementNoSpace,
float escapementSpace)
{
REPORT(kDebug, fPage, "DrawString string=\"%s\", escapementNoSpace=%f, "
"escapementSpace=%f, at %f, %f", string, escapementNoSpace,
escapementSpace, fState->penX, fState->penY);
if (IsDrawing()) {
// text color is always the high color and not the pattern!
SetColor(fState->foregroundColor);
}
// convert string to UTF8
BString utf8;
if (fState->beFont.Encoding() == B_UNICODE_UTF8) {
utf8 = string;
} else {
ToUtf8(fState->beFont.Encoding()-1, string, utf8);
}
// convert string in UTF8 to unicode UCS2
BString unicode;
ToUnicode(utf8.String(), unicode);
// need font object to calculate width of utf8 code point
BFont font = fState->beFont;
font.SetEncoding(B_UNICODE_UTF8);
// constants to calculate position of next character
const double rotation = DEGREE2RAD(fState->beFont.Rotation());
const bool rotate = rotation != 0.0;
const double cos1 = rotate ? cos(rotation) : 1;
const double sin1 = rotate ? -sin(rotation) : 0;
BPoint start(fState->penX, fState->penY);
BeginTransparency();
// If !MakesPDF() all the effort below just for the bounding box!
// draw each character
const char *c = utf8.String();
const unsigned char *u = (unsigned char*)unicode.String();
for (int i = 0; i < unicode.Length(); i += 2) {
int s = CodePointSize((char*)c);
float w = font.StringWidth(c, s);
if (MakesPDF() && IsClipping()) {
ClipChar(&font, (char*)u, c, s, w);
} else {
DrawChar(u[0]*256+u[1], c, s);
}
// position of next character
if (*(unsigned char*)c <= 0x20) { // should test if c is a white-space!
w += escapementSpace;
} else {
w += escapementNoSpace;
}
fState->penX += w * cos1;
fState->penY += w * sin1;
// next character
c += s; u += 2;
}
EndTransparency();
// text line processing (for non rotated text only!)
BPoint end(fState->penX, fState->penY);
BRect bounds;
font_height height;
font.GetHeight(&height);
bounds.left = start.x;
bounds.right = end.x;
bounds.top = start.y - height.ascent;
bounds.bottom = end.y + height.descent;
TextSegment* segment = new TextSegment(utf8.String(), start, escapementSpace,
escapementNoSpace, &bounds, &font, pdfSystem());
fTextLine.Add(segment);
}
void CIGAROpsToBlocks(std::vector<int> &lengths, std::vector<char> &ops,
int &cigarPos,
int &cigarEnd,
int &qPos, int &tPos,
AlignmentCandidate<> &aln) {
int gapIndex = 0;
DNALength qStart = qPos, tStart = tPos;
assert(cigarPos >= cigarEnd or !IsClipping(ops[cigarPos]));
//
// Advance past any skipped portion.
//
int numSkipped = AdvancePastSkipped(lengths, ops, cigarPos);
tPos += numSkipped;
//
// Process the gaps before the first match.
//
//
// If there is nothing left, just bail.
blasr::GapList gap;
cigarEnd = cigarPos;
AdvancePosToAlignmentEnd(ops, cigarEnd);
if (cigarPos >= cigarEnd) {
return;
}
//
// Process any gap that the aligner produces before the first match
// begins.
//
int qAdvance, tAdvance;
ProcessGap(lengths, ops, cigarPos, cigarEnd, gap, qAdvance, tAdvance);
aln.gaps.push_back(gap);
qPos += qAdvance;
tPos += tAdvance;
//
// Now add gaps.
//
while(cigarPos < cigarEnd) {
//
// The next operation must be a match.
//
int matchLength = ProcessMatch(lengths, ops, cigarPos, cigarEnd);
blasr::Block b;
b.qPos = qPos - qStart;
b.tPos = tPos - tStart;
b.length = matchLength;
aln.blocks.push_back(b);
qPos += b.length;
tPos += b.length;
ProcessGap(lengths, ops, cigarPos, cigarEnd, gap, qAdvance, tAdvance);
aln.gaps.push_back(gap);
tPos += tAdvance;
qPos += qAdvance;
}
}
