Skip to main content

pdf format - Export MatrixPlot graphics to PDF


I am trying to export a plot generated by MatrixPlot to PDF but am having problems with the way the exported PDF is rendered.



  mPlot = MatrixPlot[length, 
  Epilog -> {Cyan, 
    MapIndexed[If[#1 != 0, Text[#1, Reverse[#2 - 1/2]]] &, 
     Reverse[number], {2}]}, Mesh -> True, 
  FrameTicks -> {{Table[i, {i, 9}], 
     MapIndexed[{First[#2], regionCodes[[#1]]} &, 
      Table[i, {i, 9}]]}, {Table[i, {i, 9}], 
     MapIndexed[{First[#2], Rotate[regionCodes[[#1]], 90 Degree]} &, 
      Table[i, {i, 9}]]}}, ColorFunctionScaling -> False, 
  PlotRange -> {Min[length], Max[length]}]


The matrices length (plotted as shades of gray in the figure below), number (shown as the cyan numbers in the figure below), and regionCodes have the following values


length = {{0, 0, 0, 0, 0, 0, 0, 0, 0}, {0, 0.079774, 0.0545131, 
   0.0484267, 0.0614324, 0.0627509, 0.0572262, 0.0424639, 0}, {0, 0, 
   0.0600802, 0.100418, 0.0615561, 0.0737833, 0.0732888, 0.0624553, 
   0}, {0, 0, 0, 0.0740108, 0.0559982, 0.0666054, 0.0749018, 
   0.0493431, 0}, {0, 0, 0, 0, 0.0774839, 0.0554172, 0.0564699, 
   0.0491287, 0}, {0, 0, 0, 0, 0, 0.0798436, 0.0643044, 0.0606039, 
   0}, {0, 0, 0, 0, 0, 0, 0.107009, 0.0713126, 0}, {0, 0, 0, 0, 0, 0, 
   0, 0.0951722, 0}, {0, 0, 0, 0, 0, 0, 0, 0, 0}}

number = {{0, 0, 0, 0, 0, 0, 0, 0, 0}, {0, 37, 53, 21, 778, 1064, 228,
    15, 0}, {0, 0, 27, 40, 761, 1164, 272, 21, 0}, {0, 0, 0, 7, 331, 
   507, 125, 9, 0}, {0, 0, 0, 0, 5935, 12430, 2917, 245, 0}, {0, 0, 0,
    0, 0, 10665, 4323, 393, 0}, {0, 0, 0, 0, 0, 0, 664, 90, 0}, {0, 0,
    0, 0, 0, 0, 0, 7, 0}, {0, 0, 0, 0, 0, 0, 0, 0, 0}}
regionCodes = {"New England", "Middle Atlantic", "East North Central",
   "West North Central", "South Atlantic", "East South Central", 
  "West South Central", "Mountain", "Pacific"}

This is length//MatrixForm



enter image description here


And this is number//MatrixForm


enter image description here


The plot looks like this when shown in Mathematica enter image description here


But the exported PDF is rendered as follows (shown in OS X Preview) enter image description here


There is a lot of shading and (and anti-aliasing?) going on (it shouldn't!). The only solution I have come up with is to rasterize the plot before exporting it. It does the job, but I don't consider it very elegant.


Export["regionIBD_MatrixPlot.pdf", Rasterize[mPlot, ImageResolution -> 600], ImageSize -> Full]

The funny thing is that if I export it as TIFF, it renders correctly. Is there a way to export the plot as a vector graphics and not as a bitmap?



Answer




To long for a comment, but looks great on "10.0 for Mac OS X x86 (64-bit) (June 29, 2014)" with AR, Preview and Skim. Shut-down and restart your system and try with an alternative viewer ...


enter image description here


Edit


@Jens response is fantastic, right? The procedure improves the resolution dramatically and even reduced the size.


enter image description here


I was able to test both algorithms on iMac & MacBookRetina (Home) and iMac (work). No difference, still the same results. The PDF's I opened on W7 & W8 with AR without significant differences between Mac and W be seen.


I am also "R" user and therefore use X11 and Cairo. On my Mac the Cairo Engine is the PDF Creator (I guess?). I wanted to share this information with the community.


Maybe this Information leads to a new question with even better answers.


Comments

Post a Comment

Popular posts from this blog

mathematical optimization - Minimizing using indices, error: Part::pkspec1: The expression cannot be used as a part specification

I want to use Minimize where the variables to minimize are indices pointing into an array. Here a MWE that hopefully shows what my problem is. vars = u@# & /@ Range[3]; cons = Flatten@ { Table[(u[j] != #) & /@ vars[[j + 1 ;; -1]], {j, 1, 3 - 1}], 1 vec1 = {1, 2, 3}; vec2 = {1, 2, 3}; Minimize[{Total@((vec1[[#]] - vec2[[u[#]]])^2 & /@ Range[1, 3]), cons}, vars, Integers] The error I get: Part::pkspec1: The expression u[1] cannot be used as a part specification. >> Answer Ok, it seems that one can get around Mathematica trying to evaluate vec2[[u[1]]] too early by using the function Indexed[vec2,u[1]] . The working MWE would then look like the following: vars = u@# & /@ Range[3]; cons = Flatten@{ Table[(u[j] != #) & /@ vars[[j + 1 ;; -1]], {j, 1, 3 - 1}], 1 vec1 = {1, 2, 3}; vec2 = {1, 2, 3}; NMinimize[ {Total@((vec1[[#]] - Indexed[vec2, u[#]])^2 & /@ R...
Post a Comment
Read more

functions - Get leading series expansion term?

Given a function f[x] , I would like to have a function leadingSeries that returns just the leading term in the series around x=0 . For example: leadingSeries[(1/x + 2)/(4 + 1/x^2 + x)] x and leadingSeries[(1/x + 2 + (1 - 1/x^3)/4)/(4 + x)] -(1/(16 x^3)) Is there such a function in Mathematica? Or maybe one can implement it efficiently? EDIT I finally went with the following implementation, based on Carl Woll 's answer: lds[ex_,x_]:=( (ex/.x->(x+O[x]^2))/.SeriesData[U_,Z_,L_List,Mi_,Ma_,De_]:>SeriesData[U,Z,{L[[1]]},Mi,Mi+1,De]//Quiet//Normal) The advantage is, that this one also properly works with functions whose leading term is a constant: lds[Exp[x],x] 1 Answer Update 1 Updated to eliminate SeriesData and to not return additional terms Perhaps you could use: leadingSeries[expr_, x_] := Normal[expr /. x->(x+O[x]^2) /. a_List :> Take[a, 1]] Then for your examples: leadingSeries[(1/x + 2)/(4 + 1/x^2 + x), x] leadingSeries[Exp[x], x] leadingSeries[(1/x + 2 + (1 - 1/x...
Post a Comment
Read more

What is and isn't a valid variable specification for Manipulate?

I have an expression whose terms have arguments (representing subscripts), like this: myExpr = A[0] + V[1,T] I would like to put it inside a Manipulate to see its value as I move around the parameters. (The goal is eventually to plot it wrt one of the variables inside.) However, Mathematica complains when I set V[1,T] as a manipulated variable: Manipulate[Evaluate[myExpr], {A[0], 0, 1}, {V[1, T], 0, 1}] (*Manipulate::vsform: Manipulate argument {V[1,T],0,1} does not have the correct form for a variable specification. >> *) As a workaround, if I get rid of the symbol T inside the argument, it works fine: Manipulate[ Evaluate[myExpr /. T -> 15], {A[0], 0, 1}, {V[1, 15], 0, 1}] Why this behavior? Can anyone point me to the documentation that says what counts as a valid variable? And is there a way to get Manpiulate to accept an expression with a symbolic argument as a variable? Investigations I've done so far: I tried using variableQ from this answer , but it says V[1...
Post a Comment
Read more