Error(s) in re-building vignettes:
  ...
--- re-building ‘batch-mode.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘batch-mode.Rmd’

--- re-building ‘linescan-data.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Quitting from lines 20-23 (linescan-data.Rmd) 
Error: processing vignette 'linescan-data.Rmd' failed with diagnostics:
there is no package called 'vctrs'
--- failed re-building ‘linescan-data.Rmd’

--- re-building ‘single-images.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
trying URL 'http://cran.rstudio.com/src/contrib/digest_0.6.26.tar.gz'
Content type 'application/x-gzip' length 163988 bytes (160 KB)
==================================================
downloaded 160 KB

trying URL 'http://cran.rstudio.com/src/contrib/vctrs_0.3.4.tar.gz'
Content type 'application/x-gzip' length 995078 bytes (971 KB)
==================================================
downloaded 971 KB

trying URL 'http://cran.rstudio.com/src/contrib/dplyr_1.0.2.tar.gz'
Content type 'application/x-gzip' length 935654 bytes (913 KB)
==================================================
downloaded 913 KB

* installing *source* package ‘digest’ ...
** package ‘digest’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c SpookyV2.cpp -o SpookyV2.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c aes.c -o aes.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c blake3.c -o blake3.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c blake3_dispatch.c -o blake3_dispatch.o
"blake3_dispatch.c", line 21: #error: "Unimplemented!"
cc: acomp failed for blake3_dispatch.c
*** Error code 2
make: Fatal error: Command failed for target `blake3_dispatch.o'
Current working directory /tmp/RtmpgBaWkR/working_dir/Rtmp7RaOj3/R.INSTALL6e4d15a13b4e/digest/src
ERROR: compilation failed for package ‘digest’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/digest’
ERROR: dependency ‘digest’ is not available for package ‘vctrs’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/vctrs’
ERROR: dependency ‘vctrs’ is not available for package ‘dplyr’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/dplyr’

The downloaded source packages are in
	'/tmp/RtmpgBaWkR/working_dir/RtmpHOa461/downloaded_packages'
trying URL 'http://cran.rstudio.com/src/contrib/digest_0.6.26.tar.gz'
Content type 'application/x-gzip' length 163988 bytes (160 KB)
==================================================
downloaded 160 KB

trying URL 'http://cran.rstudio.com/src/contrib/dplyr_1.0.2.tar.gz'
Content type 'application/x-gzip' length 935654 bytes (913 KB)
==================================================
downloaded 913 KB

trying URL 'http://cran.rstudio.com/src/contrib/vctrs_0.3.4.tar.gz'
Content type 'application/x-gzip' length 995078 bytes (971 KB)
==================================================
downloaded 971 KB

trying URL 'http://cran.rstudio.com/src/contrib/tidyr_1.1.2.tar.gz'
Content type 'application/x-gzip' length 881544 bytes (860 KB)
==================================================
downloaded 860 KB

* installing *source* package ‘digest’ ...
** package ‘digest’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c SpookyV2.cpp -o SpookyV2.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c aes.c -o aes.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c blake3.c -o blake3.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c blake3_dispatch.c -o blake3_dispatch.o
"blake3_dispatch.c", line 21: #error: "Unimplemented!"
cc: acomp failed for blake3_dispatch.c
*** Error code 2
make: Fatal error: Command failed for target `blake3_dispatch.o'
Current working directory /tmp/RtmpgBaWkR/working_dir/RtmpRcaaR3/R.INSTALL6f58308d5092/digest/src
ERROR: compilation failed for package ‘digest’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/digest’
ERROR: dependency ‘digest’ is not available for package ‘vctrs’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/vctrs’
ERROR: dependency ‘vctrs’ is not available for package ‘dplyr’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/dplyr’
ERROR: dependencies ‘dplyr’, ‘vctrs’ are not available for package ‘tidyr’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/tidyr’

The downloaded source packages are in
	'/tmp/RtmpgBaWkR/working_dir/RtmpHOa461/downloaded_packages'
trying URL 'http://cran.rstudio.com/src/contrib/ps_1.4.0.tar.gz'
Content type 'application/x-gzip' length 110708 bytes (108 KB)
==================================================
downloaded 108 KB

trying URL 'http://cran.rstudio.com/src/contrib/processx_3.4.4.tar.gz'
Content type 'application/x-gzip' length 134703 bytes (131 KB)
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downloaded 131 KB

trying URL 'http://cran.rstudio.com/src/contrib/callr_3.5.1.tar.gz'
Content type 'application/x-gzip' length 77905 bytes (76 KB)
==================================================
downloaded 76 KB

trying URL 'http://cran.rstudio.com/src/contrib/prettyunits_1.1.1.tar.gz'
Content type 'application/x-gzip' length 10366 bytes (10 KB)
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downloaded 10 KB

trying URL 'http://cran.rstudio.com/src/contrib/desc_1.2.0.tar.gz'
Content type 'application/x-gzip' length 65612 bytes (64 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/pkgbuild_1.1.0.tar.gz'
Content type 'application/x-gzip' length 29854 bytes (29 KB)
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downloaded 29 KB

trying URL 'http://cran.rstudio.com/src/contrib/rprojroot_1.3-2.tar.gz'
Content type 'application/x-gzip' length 50414 bytes (49 KB)
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downloaded 49 KB

trying URL 'http://cran.rstudio.com/src/contrib/rstudioapi_0.11.tar.gz'
Content type 'application/x-gzip' length 98082 bytes (95 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/pkgload_1.1.0.tar.gz'
Content type 'application/x-gzip' length 58046 bytes (56 KB)
==================================================
downloaded 56 KB

trying URL 'http://cran.rstudio.com/src/contrib/praise_1.0.0.tar.gz'
Content type 'application/x-gzip' length 6100 bytes
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downloaded 6100 bytes

trying URL 'http://cran.rstudio.com/src/contrib/colorspace_1.4-1.tar.gz'
Content type 'application/x-gzip' length 2152594 bytes (2.1 MB)
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downloaded 2.1 MB

trying URL 'http://cran.rstudio.com/src/contrib/testthat_2.3.2.tar.gz'
Content type 'application/x-gzip' length 249661 bytes (243 KB)
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downloaded 243 KB

trying URL 'http://cran.rstudio.com/src/contrib/farver_2.0.3.tar.gz'
Content type 'application/x-gzip' length 1279579 bytes (1.2 MB)
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downloaded 1.2 MB

trying URL 'http://cran.rstudio.com/src/contrib/labeling_0.3.tar.gz'
Content type 'application/x-gzip' length 10722 bytes (10 KB)
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downloaded 10 KB

trying URL 'http://cran.rstudio.com/src/contrib/munsell_0.5.0.tar.gz'
Content type 'application/x-gzip' length 182653 bytes (178 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/RColorBrewer_1.1-2.tar.gz'
Content type 'application/x-gzip' length 11532 bytes (11 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/viridisLite_0.3.0.tar.gz'
Content type 'application/x-gzip' length 44019 bytes (42 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/digest_0.6.26.tar.gz'
Content type 'application/x-gzip' length 163988 bytes (160 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/isoband_0.2.2.tar.gz'
Content type 'application/x-gzip' length 2295931 bytes (2.2 MB)
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downloaded 2.2 MB

trying URL 'http://cran.rstudio.com/src/contrib/scales_1.1.1.tar.gz'
Content type 'application/x-gzip' length 515201 bytes (503 KB)
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trying URL 'http://cran.rstudio.com/src/contrib/ggplot2_3.3.2.tar.gz'
Content type 'application/x-gzip' length 3054431 bytes (2.9 MB)
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downloaded 2.9 MB

* installing *source* package ‘ps’ ...
** package ‘ps’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/cc -xc99 -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -Wall px.c -o px
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c init.c -o init.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c api-common.c -o api-common.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c common.c -o common.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c extra.c -o extra.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c dummy.c -o dummy.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c error-codes.c -o error-codes.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -G -L/usr/local/lib -o ps.so init.o api-common.o common.o extra.o dummy.o error-codes.o
installing via 'install.libs.R' to /tmp/RtmpgBaWkR/RLIBS_56561a881b02/00LOCK-ps/00new/ps
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (ps)
* installing *source* package ‘prettyunits’ ...
** package ‘prettyunits’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (prettyunits)
* installing *source* package ‘rprojroot’ ...
** package ‘rprojroot’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rprojroot)
* installing *source* package ‘rstudioapi’ ...
** package ‘rstudioapi’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rstudioapi)
* installing *source* package ‘praise’ ...
** package ‘praise’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (praise)
* installing *source* package ‘colorspace’ ...
** package ‘colorspace’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c colorspace.c -o colorspace.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c init.c -o init.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -G -L/usr/local/lib -o colorspace.so colorspace.o init.o
installing to /tmp/RtmpgBaWkR/RLIBS_56561a881b02/00LOCK-colorspace/00new/colorspace/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (colorspace)
* installing *source* package ‘farver’ ...
** package ‘farver’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c ColorSpace.cpp -o ColorSpace.o
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c Comparison.cpp -o Comparison.o
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c Conversion.cpp -o Conversion.o
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c encode.cpp -o encode.o
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c farver.cpp -o farver.o
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c init.cpp -o init.o
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -G -L/usr/local/lib -o farver.so ColorSpace.o Comparison.o Conversion.o encode.o farver.o init.o
installing to /tmp/RtmpgBaWkR/RLIBS_56561a881b02/00LOCK-farver/00new/farver/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (farver)
* installing *source* package ‘labeling’ ...
** package ‘labeling’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (labeling)
* installing *source* package ‘RColorBrewer’ ...
** package ‘RColorBrewer’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RColorBrewer)
* installing *source* package ‘viridisLite’ ...
** package ‘viridisLite’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (viridisLite)
* installing *source* package ‘digest’ ...
** package ‘digest’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/CC -std=c++11 -library=stdcpp,CrunG3 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmil -xtarget=native -xcache=generic -nofstore  -c SpookyV2.cpp -o SpookyV2.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c aes.c -o aes.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c blake3.c -o blake3.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c blake3_dispatch.c -o blake3_dispatch.o
"blake3_dispatch.c", line 21: #error: "Unimplemented!"
cc: acomp failed for blake3_dispatch.c
*** Error code 2
make: Fatal error: Command failed for target `blake3_dispatch.o'
Current working directory /tmp/RtmpgBaWkR/working_dir/RtmpZhaONb/R.INSTALL33d75667ae6/digest/src
ERROR: compilation failed for package ‘digest’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/digest’
* installing *source* package ‘processx’ ...
** package ‘processx’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/cc -xc99 -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -Wall tools/px.c -o tools/px
/home/ripley/developerstudio12.6/bin/cc -xc99 -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  supervisor/supervisor.c supervisor/utils.c \
      -o supervisor/supervisor
supervisor/supervisor.c:
"supervisor/supervisor.c", line 453: warning: statement not reached
supervisor/utils.c:
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c base64.c -o base64.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c client.c -o client.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c errors.c -o errors.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -G  -L/usr/local/lib -o client.so base64.o client.o errors.o   
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c init.c -o init.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c poll.c -o poll.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c processx-connection.c -o processx-connection.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c processx-vector.c -o processx-vector.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c create-time.c -o create-time.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unix/childlist.c -o unix/childlist.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unix/connection.c -o unix/connection.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unix/processx.c -o unix/processx.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unix/sigchld.c -o unix/sigchld.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unix/utils.c -o unix/utils.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unix/named_pipe.c -o unix/named_pipe.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c cleancall.c -o cleancall.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -G -L/usr/local/lib -o processx.so init.o poll.o errors.o processx-connection.o processx-vector.o create-time.o base64.o unix/childlist.o unix/connection.o unix/processx.o unix/sigchld.o unix/utils.o unix/named_pipe.o cleancall.o
installing via 'install.libs.R' to /tmp/RtmpgBaWkR/RLIBS_56561a881b02/00LOCK-processx/00new/processx
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (processx)
* installing *source* package ‘desc’ ...
** package ‘desc’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (desc)
* installing *source* package ‘munsell’ ...
** package ‘munsell’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (munsell)
* installing *source* package ‘callr’ ...
** package ‘callr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (callr)
* installing *source* package ‘scales’ ...
** package ‘scales’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (scales)
* installing *source* package ‘pkgbuild’ ...
** package ‘pkgbuild’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (pkgbuild)
* installing *source* package ‘pkgload’ ...
** package ‘pkgload’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
/home/ripley/developerstudio12.6/bin/cc -xc99 -I"/home/ripley/R/cc/include" -DNDEBUG   -I/usr/local/include  -KPIC  -O -xlibmieee -xlibmil -xtarget=native -xcache=generic -nofstore  -c unlock.c -o unlock.o
/home/ripley/developerstudio12.6/bin/cc -xc99 -G -L/usr/local/lib -o pkgload.so unlock.o
installing to /tmp/RtmpgBaWkR/RLIBS_56561a881b02/00LOCK-pkgload/00new/pkgload/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (pkgload)
ERROR: dependency ‘digest’ is not available for package ‘testthat’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/testthat’
ERROR: dependency ‘testthat’ is not available for package ‘isoband’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/isoband’
ERROR: dependencies ‘digest’, ‘isoband’ are not available for package ‘ggplot2’
* removing ‘/tmp/RtmpgBaWkR/RLIBS_56561a881b02/ggplot2’

The downloaded source packages are in
	'/tmp/RtmpgBaWkR/working_dir/RtmpHOa461/downloaded_packages'
Quitting from lines 36-39 (single-images.Rmd) 
Error: processing vignette 'single-images.Rmd' failed with diagnostics:
there is no package called 'dplyr'
--- failed re-building ‘single-images.Rmd’

SUMMARY: processing the following files failed:
  ‘linescan-data.Rmd’ ‘single-images.Rmd’

Error: Vignette re-building failed.
Execution halted