Installing issue (looks due to qpdf dependecy)

[Ludo-vic-D]

hi, Working on cloudera machine learning, create a new blank project, launch a R 4.1 session and just try to install pdftools :

the error : In file included from libqpdf/Pl_DCT.cc:1: include/qpdf/Pl_DCT.hh:27:10: fatal error: jpeglib.h: No such file or directory 27 | #include | ^~~

can you help me to find a solution?

sessionInfo() R version 4.1.1 (--) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 20.04.6 LTS

Matrix products: default BLAS/LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.8.so

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

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

other attached packages: [1] Rook_1.1-1 RJSONIO_1.3-1.5 Cairo_1.2-0

loaded via a namespace (and not attached): [1] compiler_4.1.1 tools_4.1.1 codetools_0.2-18 brew_1.0-6
install.packages("pdftools") Installing package into ‘/home/cdsw/.local/lib/R/4.1/library’ (as ‘lib’ is unspecified) also installing the dependencies ‘Rcpp’, ‘qpdf’

trying URL 'https://cran.rstudio.com/src/contrib/Rcpp_1.0.10.tar.gz' Content type 'application/x-gzip' length 2936173 bytes (2.8 MB)

downloaded 2.8 MB

trying URL 'https://cran.rstudio.com/src/contrib/qpdf_1.3.2.tar.gz' Content type 'application/x-gzip' length 322552 bytes (314 KB)

downloaded 314 KB

trying URL 'https://cran.rstudio.com/src/contrib/pdftools_3.3.3.tar.gz' Content type 'application/x-gzip' length 936280 bytes (914 KB)

downloaded 914 KB

• installing source package ‘Rcpp’ ... package ‘Rcpp’ successfully unpacked and MD5 sums checked using staged installation libs g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c api.cpp -o api.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c attributes.cpp -o attributes.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c barrier.cpp -o barrier.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c date.cpp -o date.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c module.cpp -o module.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c rcpp_init.cpp -o rcpp_init.o g++ -std=gnu++14 -shared -L/usr/local/lib/R/lib -L/usr/local/lib -o Rcpp.so api.o attributes.o barrier.o date.o module.o rcpp_init.o -L/usr/local/lib/R/lib -lR installing to /home/cdsw/.local/lib/R/4.1/library/00LOCK-Rcpp/00new/Rcpp/libs 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 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 (Rcpp)
• installing source package ‘qpdf’ ... package ‘qpdf’ successfully unpacked and MD5 sums checked using staged installation Using bundled qpdf (recommended) ** libs g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c bindings.cpp -o bindings.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/BitStream.cc -o libqpdf/BitStream.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/BitWriter.cc -o libqpdf/BitWriter.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Buffer.cc -o libqpdf/Buffer.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/BufferInputSource.cc -o libqpdf/BufferInputSource.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/ClosedFileInputSource.cc -o libqpdf/ClosedFileInputSource.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/ContentNormalizer.cc -o libqpdf/ContentNormalizer.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/FileInputSource.cc -o libqpdf/FileInputSource.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/InputSource.cc -o libqpdf/InputSource.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/InsecureRandomDataProvider.cc -o libqpdf/InsecureRandomDataProvider.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/JSON.cc -o libqpdf/JSON.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/MD5.cc -o libqpdf/MD5.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/OffsetInputSource.cc -o libqpdf/OffsetInputSource.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pipeline.cc -o libqpdf/Pipeline.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_AES_PDF.cc -o libqpdf/Pl_AES_PDF.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_ASCII85Decoder.cc -o libqpdf/Pl_ASCII85Decoder.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_ASCIIHexDecoder.cc -o libqpdf/Pl_ASCIIHexDecoder.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_Buffer.cc -o libqpdf/Pl_Buffer.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_Concatenate.cc -o libqpdf/Pl_Concatenate.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_Count.cc -o libqpdf/Pl_Count.o g++ -std=gnu++14 -I"/usr/local/lib/R/include" -DNDEBUG -Iinclude -Ilibqpdf -I'/home/cdsw/.local/lib/R/4.1/library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c libqpdf/Pl_DCT.cc -o libqpdf/Pl_DCT.o In file included from libqpdf/Pl_DCT.cc:1: include/qpdf/Pl_DCT.hh:27:10: fatal error: jpeglib.h: No such file or directory 27 | #include | ^~~ compilation terminated. make: *** [/usr/local/lib/R/etc/Makeconf:175: libqpdf/Pl_DCT.o] Error 1 ERROR: compilation failed for package ‘qpdf’
• removing ‘/home/cdsw/.local/lib/R/4.1/library/qpdf’ ERROR: dependency ‘qpdf’ is not available for package ‘pdftools’
• removing ‘/home/cdsw/.local/lib/R/4.1/library/pdftools’

The downloaded source packages are in ‘/tmp/RtmpehArrv/downloaded_packages’ Warning messages: 1: In install.packages("pdftools") : installation of package ‘qpdf’ had non-zero exit status 2: In install.packages("pdftools") : installation of package ‘pdftools’ had non-zero exit status

[jeroen]

sudo apt-get install libjpeg-dev

[Ludo-vic-D]

Dont get privilège to execute apt-get on this environement (docker image) https://imgur.com/a/oQXc7LQ any suggestion?