Skip to main content

import - How to Flatten and stack Efficiently 50000 Images



I have 50000 grayscale images with 56*56 pixels each one. I need to flatten images and stakck it in the same array with dimensions 50000*3136 after that export the file as .CSV. I am doing this code which load all images in the memory which can cause a problem if we have not enough memory space.


imagesToArray[pathsrc_, pathdes_] := Module[{filesList, data}, (
(* pathsrc_ : list of images path *)
(* pathdes_ : CSV file path*)

filesList = FileNames["*.png", pathsrc];
Print["Number of images :", Length@filesList];
data =
Table[Flatten[ImageData[Import[filesList[[i]]]]], {i, 1,
Length@filesList}];

Export[pathdes, data];
data
)]

Is there any alternative to do it faster without memory problem?



Answer



You can combine @nikie's approach above with the use of a faster built-in import function.


If you can forgo all the behind-the-scene checking that Import does, you can try using the built-in function that Import ultimately calls to read in a PNG file, which is Image`ImportExportDump`ImageReadPNG. I found that out by using Trace@Import[somePNGfile] and wading through quite a lot of output. Incidentally, the counterpart to this function also exists, i.e. ImageWritePNG, but it requires multiple arguments and I haven't figured that one out yet; however, Export is already quite a bit zippier than Import at least for PNG files, so the need is less pronounced there.


It returns a list containing the image imported. To get each image, you can use e.g.


First@Image`ImportExportDump`ImageReadPNG[pathToImage]


It is at least 10x faster than using Import, and quite possibly more.


For instance, let's generate 200 small PNGs of the kind you are working with:


MapIndexed[
Export["images\\" <> ToString[First@#2] <> ".png", #1] &,
Image /@ RandomReal[{0, 1}, {200, 56, 56}]
];

Now let's compare timings:


First@Image`ImportExportDump`ImageReadPNG["images\\" <> ToString[#] <> ".png"] & /@ 

Range[1, 200]; // AbsoluteTiming

Import["images\\" <> ToString[#] <> ".png"] & /@ Range[1, 200]; // AbsoluteTiming

(* Out:
{0.221601, Null}
{15.5932, Null}
*)

That's a 70x speedup!



Comments

Popular posts from this blog

plotting - How to draw lines between specified dots on ListPlot?

I would like to create a plot where I have unconnected dots and some connected. So far, I have figured out how to draw the dots. My code is the following: ListPlot[{{1, 1}, {2, 2}, {3, 3}, {4, 4}, {1, 4}, {2, 5}, {3, 6}, {4, 7}, {1, 7}, {2, 8}, {3, 9}, {4, 10}, {1, 10}, {2, 11}, {3, 12}, {4,13}, {2.5, 7}}, Ticks -> {{1, 2, 3, 4}, None}, AxesStyle -> Thin, TicksStyle -> Directive[Black, Bold, 12], Mesh -> Full] I have thought using ListLinePlot command, but I don't know how to specify to the command to draw only selected lines between the dots. Do have any suggestions/hints on how to do that? Thank you. Answer One possibility would be to use Epilog with Line : ListPlot[ {{1, 1}, {2, 2}, {3, 3}, {4, 4}, {1, 4}, {2, 5}, {3, 6}, {4, 7}, {1, 7}, {2, 8}, {3, 9}, {4, 10}, {1, 10}, {2, 11}, {3, 12}, {4, 13}, {2.5, 7}}, Ticks -> {{1, 2, 3, 4}, None}, AxesStyle -> Thin, TicksStyle -> Directive[Black, Bold, 12], Mesh -> Full, Epilog -> { Line[ ...

dynamic - How can I make a clickable ArrayPlot that returns input?

I would like to create a dynamic ArrayPlot so that the rectangles, when clicked, provide the input. Can I use ArrayPlot for this? Or is there something else I should have to use? Answer ArrayPlot is much more than just a simple array like Grid : it represents a ranged 2D dataset, and its visualization can be finetuned by options like DataReversed and DataRange . These features make it quite complicated to reproduce the same layout and order with Grid . Here I offer AnnotatedArrayPlot which comes in handy when your dataset is more than just a flat 2D array. The dynamic interface allows highlighting individual cells and possibly interacting with them. AnnotatedArrayPlot works the same way as ArrayPlot and accepts the same options plus Enabled , HighlightCoordinates , HighlightStyle and HighlightElementFunction . data = {{Missing["HasSomeMoreData"], GrayLevel[ 1], {RGBColor[0, 1, 1], RGBColor[0, 0, 1], GrayLevel[1]}, RGBColor[0, 1, 0]}, {GrayLevel[0], GrayLevel...

Is there a way to do conditional matrix loop using 'continue'

I have the following: n = 3; m = 5; ww = RandomReal[{0, 0.1}, {n, n}]; uu = RandomReal[{0, 1}, {m, n}]; pp = RandomReal[{0, 1}, {n, n}]; ss = RandomInteger[{0, 5}, {m, n}]; Grid[{{"ww", "uu", "pp", "ss"}, {ww // TableForm, uu // TableForm, pp // TableForm, ss // TableForm}}, Spacings -> {5, 2}, Dividers -> All] where I would like to look at every element of matrix ss and produce a matrix tt , with zeroes at the locations in ss which have zeroes, and in all other positions do the following: tt = (-1/Subscript[ww, m]) Log[(1 - uu)/(Subscript[pp, m - 1])], where Subscript[ww, m] is the value at index of ww matrix and where Subscript[pp, m - 1] is the value at index-1 of pp matrix. So for example if the first value ever read from matrix ss happens to be 2, then value taken from matrix ww would be from the row 2, but from pp would be from row 1. Also how to tell difference between a 0 as a valid value from within the matrix elemen...