[R-pkg-devel] clang-san issue with R vignettes using ggplot2

[Kaifeng Lu]

Dear friends,

I received clang-san error messages for all vignettes that include ggplot2
figures when submitting an R package to CRAN. Please see below for an
example.

How can I resolve this problem without replacing the ggplot2 figures with
base R plots?

Thank you in advance for your help.

Regards,
Kaifeng

--- re-building ‘tsegest.Rmd’ using rmarkdown
  ** Processing:
/home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/tsegest_files/figure-html/km-1.png
  288x288 pixels, 8 bits/pixel, 256 colors in palette
  Reducing image to 8 bits/pixel, grayscale
  Input IDAT size = 4659 bytes
  Input file size = 5517 bytes

  Trying:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 4256
    zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 4226
    zc = 1  zm = 8  zs = 2  f = 0
    zc = 9  zm = 8  zs = 3  f = 0
    zc = 9  zm = 8  zs = 0  f = 5
    zc = 9  zm = 8  zs = 1  f = 5
    zc = 1  zm = 8  zs = 2  f = 5
    zc = 9  zm = 8  zs = 3  f = 5

  Selecting parameters:
    zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 4226

  Output IDAT size = 4226 bytes (433 bytes decrease)
  Output file size = 4304 bytes (1213 bytes = 21.99% decrease)

  ** Processing:
/home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/tsegest_files/figure-html/Z(psi)-1.png
  288x288 pixels, 8 bits/pixel, 256 colors in palette
  Reducing image to 8 bits/pixel, grayscale
  Input IDAT size = 5933 bytes
  Input file size = 6791 bytes

  Trying:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 5349
    zc = 9  zm = 8  zs = 1  f = 0
    zc = 1  zm = 8  zs = 2  f = 0
    zc = 9  zm = 8  zs = 3  f = 0
    zc = 9  zm = 8  zs = 0  f = 5
    zc = 9  zm = 8  zs = 1  f = 5
    zc = 1  zm = 8  zs = 2  f = 5
    zc = 9  zm = 8  zs = 3  f = 5

  Selecting parameters:
    zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 5349

  Output IDAT size = 5349 bytes (584 bytes decrease)
  Output file size = 5427 bytes (1364 bytes = 20.09% decrease)

  --- finished re-building ‘tsegest.Rmd’

  +-+tsegest.html

  =================================================================
  ==1429888==ERROR: LeakSanitizer: detected memory leaks

  Direct leak of 7680 byte(s) in 12 object(s) allocated from:
      #0 0x55b3e7ff95d0 in realloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc65d0) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd7d28
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24d28) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Direct leak of 6656 byte(s) in 26 object(s) allocated from:
      #0 0x55b3e7ff91b3 in malloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd7c81
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24c81) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 25920 byte(s) in 810 object(s) allocated from:
      #0 0x55b3e7ff91b3 in malloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbc198f
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0xe98f) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 11982 byte(s) in 994 object(s) allocated from:
      #0 0x55b3e7fe0ebe in strdup
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xadebe) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd74d7 in FcValueSave
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x244d7) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 8768 byte(s) in 274 object(s) allocated from:
      #0 0x55b3e7ff939d in calloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd8450
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x25450) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 5376 byte(s) in 168 object(s) allocated from:
      #0 0x55b3e7ff939d in calloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd7862
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24862) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 1152 byte(s) in 36 object(s) allocated from:
      #0 0x55b3e7ff939d in calloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd770f
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x2470f) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 384 byte(s) in 12 object(s) allocated from:
      #0 0x55b3e7ff939d in calloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd777f
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x2477f) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

  Indirect leak of 288 byte(s) in 6 object(s) allocated from:
      #0 0x55b3e7ff91b3 in malloc
(/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId:
71b7cc9351bcc02083f9df16c056d5fba06ed51c)
      #1 0x7f61fcbd0d2f in FcLangSetCopy
(/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x1dd2f) (BuildId:
4b26d8a18d92f6f97cf8eccd56f114fb89e44039)

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