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logo1.eps
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logo1.eps
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%!PS-Adobe-3.0 EPSF-3.0
%%Title: Sequence Logo :
%%Creator: Ceqlogo
%%CreationDate: 03.08.20 14:42:33
%%BoundingBox: 0 0 850 212
%%Pages: 0
%%DocumentFonts:
%%EndComments
% ---- CONSTANTS ----
/cmfactor 72 2.54 div def % defines points -> cm conversion
/cm {cmfactor mul} bind def % defines centimeters
% ---- VARIABLES ----
% NA = Nucleic Acid, AA = Amino Acid
/logoType (AA) def
/logoTitle () def
% Dimensions in cm
/logoWidth 30 cm def
/logoHeight 7.5 cm def
/totalHeight 7.5 cm def
/yaxis true def
/yaxisLabel (bits) def
/yaxisBits 4.32193 def % bits
/yaxisTicBits 1 def
/xaxis true def
/xaxisLabel () def
/showEnds (false) def
/showFineprint true def
/fineprint (GLAM2 (no SSC) 03.08.20 14:42) def
/charsPerLine 38 def
/showingBox false def
/shrinking false def % true falses
/shrink 1.0 def
/outline false def
/IbeamFraction 1.0 def
/IbeamGray 0.50 def
/IbeamLineWidth 0.5 def
/fontsize 12 def
/titleFontsize 12 def
/smallFontsize 6 def
/topMargin 0.9 cm def
/bottomMargin 0.9 cm def
/defaultColor [0 0 0] def
/fullColourDict <<
(A) [0.0000 0.0000 0.8000]
(C) [0.0000 0.0000 0.8000]
(D) [1.0000 0.0000 1.0000]
(E) [1.0000 0.0000 1.0000]
(F) [0.0000 0.0000 0.8000]
(G) [1.0000 0.7020 0.0000]
(H) [1.0000 0.8000 0.8000]
(I) [0.0000 0.0000 0.8000]
(K) [0.8000 0.0000 0.0000]
(L) [0.0000 0.0000 0.8000]
(M) [0.0000 0.0000 0.8000]
(N) [0.0000 0.5020 0.0000]
(P) [1.0000 1.0000 0.0000]
(Q) [0.0000 0.5020 0.0000]
(R) [0.8000 0.0000 0.0000]
(S) [0.0000 0.5020 0.0000]
(T) [0.0000 0.5020 0.0000]
(V) [0.0000 0.0000 0.8000]
(W) [0.0000 0.0000 0.8000]
(Y) [0.2000 0.9020 0.8000]
>> def
/mutedColourDict <<
(A) [0.6000 0.6000 1.0000]
(C) [0.6000 0.6000 1.0000]
(D) [1.0000 0.6667 1.0000]
(E) [1.0000 0.6667 1.0000]
(F) [0.6000 0.6000 1.0000]
(G) [1.0000 0.9007 0.6667]
(H) [1.0000 0.9333 0.9333]
(I) [0.6000 0.6000 1.0000]
(K) [1.0000 0.6000 0.6000]
(L) [0.6000 0.6000 1.0000]
(M) [0.6000 0.6000 1.0000]
(N) [0.5007 1.0000 0.5007]
(P) [1.0000 1.0000 0.6667]
(Q) [0.5007 1.0000 0.5007]
(R) [1.0000 0.6000 0.6000]
(S) [0.5007 1.0000 0.5007]
(T) [0.5007 1.0000 0.5007]
(V) [0.6000 0.6000 1.0000]
(W) [0.6000 0.6000 1.0000]
(Y) [0.7333 0.9673 0.9333]
>> def
/colorDict fullColourDict def
% ---- DERIVED PARAMETERS ----
/leftMargin
fontsize 3.5 mul
def
/rightMargin
%Add extra room if showing ends
showEnds (false) eq { fontsize}{fontsize 1.5 mul} ifelse
def
/yaxisHeight
logoHeight
bottomMargin sub
topMargin sub
def
/ticWidth fontsize 2 div def
/pointsPerBit yaxisHeight yaxisBits div def
/stackMargin 1 def
% Do not add space aroung characters if characters are boxed
/charRightMargin
showingBox { 0.0 } {stackMargin} ifelse
def
/charTopMargin
showingBox { 0.0 } {stackMargin} ifelse
def
/charWidth
logoWidth
leftMargin sub
rightMargin sub
charsPerLine div
charRightMargin sub
def
/charWidth4 charWidth 4 div def
/charWidth2 charWidth 2 div def
/stackWidth
charWidth charRightMargin add
def
/numberFontsize
fontsize charWidth lt {fontsize}{charWidth} ifelse
def
% movements to place 5'/N and 3'/C symbols
/leftEndDeltaX fontsize neg def
/leftEndDeltaY fontsize 1.5 mul neg def
/rightEndDeltaX fontsize 0.25 mul def
/rightEndDeltaY leftEndDeltaY def
% Outline width is proporional to charWidth,
% but no less that 1 point
/outlinewidth
charWidth 32 div dup 1 gt {}{pop 1} ifelse
def
% ---- PROCEDURES ----
/StartLogo {
% Save state
save
gsave
% Print Logo Title, top center
gsave
SetStringFont
logoWidth 2 div
logoTitle
stringwidth pop 2 div sub
totalHeight
titleFontsize sub
moveto
logoTitle
show
grestore
% Print X-axis label, bottom center
gsave
SetStringFont
logoWidth 2 div
xaxisLabel
stringwidth pop 2 div sub
0
titleFontsize 3 div
add
moveto
xaxisLabel
show
grestore
% Show Fine Print
showFineprint {
gsave
SetSmallFont
logoWidth
fineprint stringwidth pop sub
smallFontsize sub
smallFontsize 3 div
moveto
fineprint show
grestore
} if
% Move to lower left corner of last line, first stack
leftMargin bottomMargin translate
% Move above first line ready for StartLine
0 totalHeight translate
SetLogoFont
} bind def
/EndLogo {
grestore
showpage
restore
} bind def
/StartLine {
% move down to the bottom of the line:
0 logoHeight neg translate
gsave
yaxis { MakeYaxis } if
xaxis { showEnds (true) eq {ShowLeftEnd} if } if
} bind def
/EndLine{
xaxis { showEnds (true) eq {ShowRightEnd} if } if
grestore
} bind def
/MakeYaxis {
gsave
stackMargin neg 0 translate
ShowYaxisBar
ShowYaxisLabel
grestore
} bind def
/ShowYaxisBar {
gsave
SetStringFont
/str 10 string def % string to hold number
/smallgap stackMargin 2 div def
% Draw first tic and bar
gsave
ticWidth neg 0 moveto
ticWidth 0 rlineto
0 yaxisHeight rlineto
stroke
grestore
% Draw the tics
% initial increment limit proc for
0 yaxisTicBits yaxisBits abs %cvi
{/loopnumber exch def
% convert the number coming from the loop to a string
% and find its width
loopnumber 10 str cvrs
/stringnumber exch def % string representing the number
stringnumber stringwidth pop
/numberwidth exch def % width of number to show
/halfnumberheight
stringnumber CharBoxHeight 2 div
def
numberwidth % move back width of number
neg loopnumber pointsPerBit mul % shift on y axis
halfnumberheight sub % down half the digit
moveto % move back the width of the string
ticWidth neg smallgap sub % Move back a bit more
0 rmoveto % move back the width of the tic
stringnumber show
smallgap 0 rmoveto % Make a small gap
% now show the tic mark
0 halfnumberheight rmoveto % shift up again
ticWidth 0 rlineto
stroke
} for
grestore
} bind def
/ShowYaxisLabel {
gsave
SetStringFont
% How far we move left depends on the size of
% the tic labels.
/str 10 string def % string to hold number
yaxisBits yaxisTicBits div cvi yaxisTicBits mul
str cvs stringwidth pop
ticWidth 1.5 mul add neg
yaxisHeight
yaxisLabel stringwidth pop
sub 2 div
translate
90 rotate
0 0 moveto
yaxisLabel show
grestore
} bind def
/StartStack { % <stackNumber> startstack
xaxis {MakeNumber}{pop} ifelse
gsave
} bind def
/EndStack {
grestore
stackWidth 0 translate
} bind def
% Draw a character whose height is proportional to symbol bits
/MakeSymbol{ % charbits character MakeSymbol
gsave
/char exch def
/bits exch def
/bitsHeight
bits pointsPerBit mul
def
/charHeight
bitsHeight charTopMargin sub
dup
0.0 gt {}{pop 0.0} ifelse % if neg replace with zero
def
charHeight 0.0 gt {
char SetColor
charWidth charHeight char ShowChar
showingBox { % Unfilled box
0 0 charWidth charHeight false ShowBox
} if
} if
grestore
0 bitsHeight translate
} bind def
/ShowChar { % <width> <height> <char> ShowChar
gsave
/tc exch def % The character
/ysize exch def % the y size of the character
/xsize exch def % the x size of the character
/xmulfactor 1 def
/ymulfactor 1 def
/limmulfactor 0.01 def
/drawable true def
% if ysize is negative, make everything upside down!
ysize 0 lt {
% put ysize normal in this orientation
/ysize ysize abs def
xsize ysize translate
180 rotate
} if
shrinking {
xsize 1 shrink sub 2 div mul
ysize 1 shrink sub 2 div mul translate
shrink shrink scale
} if
% Calculate the font scaling factors
% Loop twice to catch small correction due to first scaling
2 {
gsave
xmulfactor ymulfactor scale
ysize % desired size of character in points
tc CharBoxHeight
dup 0.0 ne {
div % factor by which to scale up the character
/ymulfactor exch def
} % end if
{pop pop}
ifelse
xsize % desired size of character in points
tc CharBoxWidth
dup 0.0 ne {
div % factor by which to scale up the character
/xmulfactor exch def
} % end if
{pop pop}
ifelse
grestore
% if the multiplication factors get too small we need to avoid a crash
xmulfactor limmulfactor lt {
/xmulfactor 1 def
/drawable false def
} if
ymulfactor limmulfactor lt {
/ymulfactor 1 def
/drawable false def
} if
} repeat
% Adjust horizontal position if the symbol is an I
tc (I) eq {
charWidth 2 div % half of requested character width
tc CharBoxWidth 2 div % half of the actual character
sub 0 translate
% Avoid x scaling for I
/xmulfactor 1 def
} if
% ---- Finally, draw the character
drawable {
newpath
xmulfactor ymulfactor scale
% Move lower left corner of character to start point
tc CharBox pop pop % llx lly : Lower left corner
exch neg exch neg
moveto
outline { % outline characters:
outlinewidth setlinewidth
tc true charpath
gsave 1 setgray fill grestore
clip stroke
} { % regular characters
tc show
} ifelse
} if
grestore
} bind def
/ShowBox { % x1 y1 x2 y2 filled ShowBox
gsave
/filled exch def
/y2 exch def
/x2 exch def
/y1 exch def
/x1 exch def
newpath
x1 y1 moveto
x2 y1 lineto
x2 y2 lineto
x1 y2 lineto
closepath
clip
filled {
fill
}{
0 setgray stroke
} ifelse
grestore
} bind def
/MakeNumber { % number MakeNumber
gsave
SetNumberFont
stackWidth 0 translate
90 rotate % rotate so the number fits
dup stringwidth pop % find the length of the number
neg % prepare for move
stackMargin sub % Move back a bit
charWidth (0) CharBoxHeight % height of numbers
sub 2 div %
moveto % move back to provide space
show
grestore
} bind def
/Ibeam{ % heightInBits Ibeam
gsave
% Make an Ibeam of twice the given height in bits
/height exch pointsPerBit mul def
/heightDRAW height IbeamFraction mul def
IbeamLineWidth setlinewidth
IbeamGray setgray
charWidth2 height neg translate
ShowIbar
newpath
0 0 moveto
0 heightDRAW rlineto
stroke
newpath
0 height moveto
0 height rmoveto
currentpoint translate
ShowIbar
newpath
0 0 moveto
0 heightDRAW neg rlineto
currentpoint translate
stroke
grestore
} bind def
/ShowIbar { % make a horizontal bar
gsave
newpath
charWidth4 neg 0 moveto
charWidth4 0 lineto
stroke
grestore
} bind def
/ShowLeftEnd {
gsave
SetStringFont
leftEndDeltaX leftEndDeltaY moveto
logoType (NA) eq {(5) show ShowPrime} if
logoType (AA) eq {(N) show} if
grestore
} bind def
/ShowRightEnd {
gsave
SetStringFont
rightEndDeltaX rightEndDeltaY moveto
logoType (NA) eq {(3) show ShowPrime} if
logoType (AA) eq {(C) show} if
grestore
} bind def
/ShowPrime {
gsave
SetPrimeFont
(\242) show
grestore
} bind def
/SetColor{ % <char> SetColor
dup colorDict exch known {
colorDict exch get aload pop setrgbcolor
} {
pop
defaultColor aload pop setrgbcolor
} ifelse
} bind def
% define fonts
/SetTitleFont {/Times-Bold findfont titleFontsize scalefont setfont} bind def
/SetLogoFont {/Helvetica-Bold findfont charWidth scalefont setfont} bind def
/SetStringFont{/Helvetica-Bold findfont fontsize scalefont setfont} bind def
/SetPrimeFont {/Symbol findfont fontsize scalefont setfont} bind def
/SetSmallFont {/Helvetica findfont smallFontsize scalefont setfont} bind def
/SetNumberFont {
/Helvetica-Bold findfont
numberFontsize
scalefont
setfont
} bind def
%Take a single character and return the bounding box
/CharBox { % <char> CharBox <lx> <ly> <ux> <uy>
gsave
newpath
0 0 moveto
% take the character off the stack and use it here:
true charpath
flattenpath
pathbbox % compute bounding box of 1 pt. char => lx ly ux uy
% the path is here, but toss it away ...
grestore
} bind def
% The height of a characters bounding box
/CharBoxHeight { % <char> CharBoxHeight <num>
CharBox
exch pop sub neg exch pop
} bind def
% The width of a characters bounding box
/CharBoxWidth { % <char> CharBoxHeight <num>
CharBox
pop exch pop sub neg
} bind def
% Set the colour scheme to be faded to indicate trimming
/MuteColour {
/colorDict mutedColourDict def
} def
% Restore the colour scheme to the normal colours
/RestoreColour {
/colorDict fullColourDict def
} def
% Draw the background for a trimmed section
% takes the number of columns as a parameter
/DrawTrimBg { % <num> DrawTrimBox
/col exch def
/boxwidth
col stackWidth mul
def
gsave
0.97 setgray
newpath
0 0 moveto
boxwidth 0 rlineto
0 yaxisHeight rlineto
0 yaxisHeight lineto
closepath
fill
grestore
} def
/DrawTrimEdge {
gsave
0.2 setgray
[2] 0 setdash
newpath
0 0 moveto
0 yaxisHeight lineto
stroke
} def
% Deprecated names
/startstack {StartStack} bind def
/endstack {EndStack} bind def
/makenumber {MakeNumber} bind def
/numchar { MakeSymbol } bind def
%%EndProlog
%%Page: 1 1
StartLogo
StartLine
(1) startstack
0.024535 (N) numchar
0.294424 (W) numchar
0.318959 (R) numchar
0.368030 (C) numchar
0.441635 (M) numchar
0.515241 (H) numchar
endstack
(2) startstack
0.079468 (V) numchar
1.509897 (W) numchar
1.589365 (C) numchar
endstack
(3) startstack
4.321928 (S) numchar
endstack
(4) startstack
4.321928 (P) numchar
endstack
(5) startstack
4.321928 (A) numchar
endstack
(6) startstack
4.321928 (D) numchar
endstack
(7) startstack
4.321928 (M) numchar
endstack
(8) startstack
4.321928 (G) numchar
endstack
(9) startstack
4.321928 (F) numchar
endstack
(10) startstack
4.321928 (M) numchar
endstack
(11) startstack
4.321928 (A) numchar
endstack
(12) startstack
0.889805 (H) numchar
0.889805 (M) numchar
0.958251 (Q) numchar
endstack
(13) startstack
4.321928 (H) numchar
endstack
(14) startstack
4.321928 (E) numchar
endstack
(15) startstack
4.321928 (F) numchar
endstack
(16) startstack
4.321928 (A) numchar
endstack
(17) startstack
4.321928 (R) numchar
endstack
(18) startstack
4.321928 (C) numchar
endstack
(19) startstack
0.889805 (L) numchar
0.889805 (N) numchar
0.958251 (H) numchar
endstack
(20) startstack
4.321928 (W) numchar
endstack
(21) startstack
4.321928 (P) numchar
endstack
(22) startstack
4.321928 (Q) numchar
endstack
(23) startstack
4.321928 (Q) numchar
endstack
(24) startstack
4.321928 (Y) numchar
endstack
(25) startstack
4.321928 (H) numchar
endstack
(26) startstack
4.321928 (K) numchar
endstack
(27) startstack
4.321928 (T) numchar
endstack
(28) startstack
4.321928 (H) numchar
endstack
(29) startstack
1.660964 (F) numchar
1.660964 (G) numchar
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endstack
EndLine
EndLogo
%%EOF