EBImage read png causes R to crash
2
1
Entering edit mode
@henning-redestig-6447
Last seen 3.9 years ago
Germany

If I repeat the following

library(EBImage)
im <- readImage("http://i.imgur.com/HngATlw.png", type="png")
im <- resize(im, w=20)

a couple of times my R session crashes with

 *** caught segfault ***

address 0xe10010c6, cause 'memory not mapped'

I can reproduce both on windows 

R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_United States.1252 
[2] LC_CTYPE=English_United States.1252   
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                          
[5] LC_TIME=English_United States.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] EBImage_4.12.0 devtools_1.9.1

loaded via a namespace (and not attached):
 [1] compiler_3.2.2      parallel_3.2.2      tools_3.2.2        
 [4] fftwtools_0.9-7     abind_1.4-3         memoise_0.2.1      
 [7] jpeg_0.1-8          grid_3.2.2          locfit_1.5-9.1     
[10] tiff_0.1-5          BiocGenerics_0.16.0 digest_0.6.8       
[13] png_0.1-7           lattice_0.20-33    

 

and on Linux

 R version 3.2.2 (2015-08-14)
 Platform: x86_64-pc-linux-gnu (64-bit)
 Running under: Red Hat Enterprise Linux Server release 6.6 (Santiago)

 locale:
  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8
  [4] LC_COLLATE=en_US.UTF-8     LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                  LC_ADDRESS=C
 [10] LC_TELEPHONE=C             LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

 attached base packages:
 [1] stats     graphics  datasets  grDevices utils     methods   base

 other attached packages:
 [1] EBImage_4.12.1

 loaded via a namespace (and not attached):
  [1] compiler_3.2.2      parallel_3.2.2      tools_3.2.2         fftwtools_0.9-7
  [5] abind_1.4-3         memoise_0.2.1       jpeg_0.1-8          grid_3.2.2
  [9] locfit_1.5-9.1      tiff_0.1-5          BiocGenerics_0.16.0 digest_0.6.8
 [13] devtools_1.9.1      png_0.1-7           lattice_0.20-33

 

but not with any png file - though that png works flawlessly in all other programs I try like imagemagick, irfanview, gimp etc.

 

ebimage bug • 994 views
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2
Entering edit mode
Andrzej Oleś ▴ 750
@andrzej-oles-5540
Last seen 8 months ago
Heidelberg, Germany

Thank you for reporting the bug, I was able to reproduce it.

The observed behaviour was related to the presence of the alpha channel in your sample image rather than to the PNG format itself. There was an issue with handling images containing the alpha channel by the downstream transformation function affine(), which is called by resize() to perform the scaling.

This is now fixed in release, EBImage version 4.12.2.

Cheers,

Andrzej

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0
Entering edit mode
@henning-redestig-6447
Last seen 3.9 years ago
Germany

Hey, great! Thanks for the fix!

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