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  • Knitr Plot Animation - disappearing output files ?

    20 avril 2015, par tcs

    I downloaded the latest ffmpeg (exe version), unzipped the files, renamed the directory to ffmpeg, copied the directory into c :\Program Files. I appended my PATH variable to include c :\Program Files\ffmpeg\bin. Finally, I restarted Rstudio.

    While attempting to run the following code chunk :

    ```{r perf_plot, fig.width=7, fig.height=6, fig.show='animate'}
    
library(corrplot)
    
corrplot(m, method = "circle")
    
m&lt;-sequence_2_matrix(perf_list[[1]])
    
corrplot(m)
    
for (i in 2:length(perf_list)) {
    
  m&lt;-(m*(i-1)+sequence_2_matrix(perf_list[[i]]))/i
    
  corrplot(m,method = "circle")
    

    
}

    I see within the output in in my RMarkdown window that the ffmpeg call seems to be successfully run, but while watching the directory where my code is located the png that is attempted to be created can often disappear, or not appear at all. Strangeness.

    processing file: MarkovRoutinesSim.rmd
    
  |........                                                         |  13%
    
  ordinary text without R code
    

    
  |...........                                                      |  17%
    
label: unnamed-chunk-2
    
  |..............                                                   |  22%
    
  ordinary text without R code
    

    
  |.................                                                |  26%
    
label: unnamed-chunk-3
    
  |....................                                             |  30%
    
  ordinary text without R code
    

    
  |.......................                                          |  35%
    
label: unnamed-chunk-4
    
  |.........................                                        |  39%
    
  ordinary text without R code
    

    
  |............................                                     |  43%
    
label: unnamed-chunk-5
    
  |...............................                                  |  48%
    
  ordinary text without R code
    

    
  |..................................                               |  52%
    
label: unnamed-chunk-6
    
  |.....................................                            |  57%
    
  ordinary text without R code
    

    
  |........................................                         |  61%
    
label: unnamed-chunk-7
    
  |..........................................                       |  65%
    
  ordinary text without R code
    

    
  |.............................................                    |  70%
    
label: perf_plot (with options) 
    
List of 3
    
 $ fig.width : num 7
    
 $ fig.height: num 6
    
 $ fig.show  : chr "animate"
    

    
executing: ffmpeg -y -r 1 -i MarkovRoutinesSim_files/figure-html/perf_plot-%d.png MarkovRoutinesSim_files/figure-html/perf_plot-.webm
    
ffmpeg version N-71515-ga40cee0 Copyright (c) 2000-2015 the FFmpeg developers
    
  built with gcc 4.9.2 (GCC)
    
  configuration: --enable-gpl --enable-version3 --disable-w32threads --enable-avisynth --enable-bzlib --enable-fontconfig --enable-frei0r --enable-gnutls --enable-iconv --enable-libass --enable-libbluray --enable-libbs2b --enable-libcaca --enable-libdcadec --enable-libfreetype --enable-libgme --enable-libgsm --enable-libilbc --enable-libmodplug --enable-libmp3lame --enable-libopencore-amrnb --enable-libopencore-amrwb --enable-libopenjpeg --enable-libopus --enable-librtmp --enable-libschroedinger --enable-libsoxr --enable-libspeex --enable-libtheora --enable-libtwolame --enable-libvidstab --enable-libvo-aacenc --enable-libvo-amrwbenc --enable-libvorbis --enable-libvpx --enable-libwavpack --enable-libwebp --enable-libx264 --enable-libx265 --enable-libxavs --enable-libxvid --enable-lzma --enable-decklink --enable-zlib
    
  libavutil      54. 22.101 / 54. 22.101
    
  libavcodec     56. 34.100 / 56. 34.100
    
  libavformat    56. 30.100 / 56. 30.100
    
  libavdevice    56.  4.100 / 56.  4.100
    
  libavfilter     5. 14.100 /  5. 14.100
    
  libswscale      3.  1.101 /  3.  1.101
    
  libswresample   1.  1.100 /  1.  1.100
    
  libpostproc    53.  3.100 / 53.  3.100
    
Input #0, image2, from 'MarkovRoutinesSim_files/figure-html/perf_plot-%d.png':
    
  Duration: 00:00:00.44, start: 0.000000, bitrate: N/A
    
    Stream #0:0: Video: png, pal8, 1344x1152 [SAR 7559:7559 DAR 7:6], 25 fps, 25 tbr, 25 tbn, 25 tbc
    
[libvpx @ 000000000310e720] v1.4.0
    
Output #0, webm, to 'MarkovRoutinesSim_files/figure-html/perf_plot-.webm':
    
  Metadata:
    
    encoder         : Lavf56.30.100
    
    Stream #0:0: Video: vp8 (libvpx), yuv420p, 1344x1152 [SAR 1:1 DAR 7:6], q=-1--1, 200 kb/s, 1 fps, 1k tbn, 1 tbc
    
    Metadata:
    
      encoder         : Lavc56.34.100 libvpx
    
Stream mapping:
    
  Stream #0:0 -> #0:0 (png (native) -> vp8 (libvpx))
    
Press [q] to stop, [?] for help
    
  |................................................                 |  74%
    
  ordinary text without R code
    

    
  |...................................................              |  78%
    
label: unnamed-chunk-8
    
  |......................................................           |  83%
    
  ordinary text without R code
    

    
  |.........................................................        |  87%
    
label: unnamed-chunk-9
    
frame=   11 fps=0.0 q=0.0 Lsize=     108kB time=00:00:11.00 bitrate=  80.8kbits/s    
    
video:108kB audio:0kB subtitle:0kB other streams:0kB global headers:0kB muxing overhead: 0.524176%
    
  |...........................................................      |  91%
    
  ordinary text without R code
    

    
  |..............................................................   |  96%
    
label: unnamed-chunk-10
    
  |.................................................................| 100%
    
  ordinary text without R code
    

    

    
"C:/Program Files/RStudio/bin/pandoc/pandoc" MarkovRoutinesSim.utf8.md --to html --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash-implicit_figures --output MarkovRoutinesSim.html --smart --email-obfuscation none --self-contained --standalone --section-divs --template "C:\Users\Tim\Documents\R\win-library\3.2\rmarkdown\rmd\h\default.html" --variable "theme:bootstrap" --include-in-header "C:\Users\Tim\AppData\Local\Temp\Rtmpkrtekd\rmarkdown-str7d43d7d5475.html" --mathjax --variable "mathjax-url:https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML" --no-highlight --variable "highlightjs=C:\Users\Tim\Documents\R\win-library\3.2\rmarkdown\rmd\h\highlight" 
    
output file: MarkovRoutinesSim.knit.md
    

    

    
Output created: MarkovRoutinesSim.html

    Any ideas on what might be happening ? I’ve tried adding in other graphs, and I see this random behavior of the file folder appearing disappearing, sometimes the file is created, other times not.

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