Plotly won't load

[aminrob]

Hi I am trying to follow a tutorial using ggplot2 and plotly. Ggplot2 is working because I am able to get graphs. However, when I try to make an interactive graph by using ggplotly I get the error "could not find function "ggplotly". I thought something was wrong when I tried typing the ggplotly function and no suggestion popped up. When I try to call plotly into the library I see the following errors: Error: package or namespace load failed for ‘plotly’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
there is no package called ‘data.table’.

I downloaded the most recent version of R Studio but the problem occurred again. I guess based on the error from library(plotly) it never loaded. Anyone know what's going on? I'm on a Mac by the way if that explains anything.

[andresrcs]

@aminrob

.libPaths()), versionCheck = vI[[j]]):
there is no package called ‘data.table’.

You are missing the data.table package, what happens if you try to install it?

install.packages("data.table")

[aminrob]

I get the following message when I try to install data.table :
Error: package or namespace load failed for ‘data.table’ in library.dynam(lib, package, package.lib):
shared object ‘datatable.so’ not found
Error: loading failed
Execution halted

[andresrcs]

That doesn't seem the output of running install.packages(). Please post the complete output message you get when you run install.packages("data.table"), otherwise we don't have enough information to help you.

[aminrob]

install.packages("data.table")

There is a binary version available but the source version is later:
binary source needs_compilation
data.table 1.12.8 1.13.0 TRUE

Do you want to install from sources the package which needs compilation? (Yes/no/cancel) yes
installing the source package ‘data.table’

trying URL 'https://cran.rstudio.com/src/contrib/data.table_1.13.0.tar.gz'
Content type 'application/x-gzip' length 5273400 bytes (5.0 MB)

downloaded 5.0 MB

• installing source package ‘data.table’ ...
  ** package ‘data.table’ successfully unpacked and MD5 sums checked
  ** using staged installation
  *** pkg-config is not installed.
  *** Compilation will now be attempted and if it works you can ignore this message. However,
  *** if compilation fails, try 'locate zlib.h zconf.h' and ensure the zlib development library
  *** is installed :
  *** deb: zlib1g-dev (Debian, Ubuntu, ...)
  *** rpm: zlib-devel (Fedora, EPEL, ...)
  *** brew: zlib (OSX)
  *** Note that zlib is required to compile R itself so you may find the advice in the R-admin
  *** guide helpful regarding zlib. On Debian/Ubuntu, zlib1g-dev is a dependency of r-base as
  *** shown by 'apt-cache showsrc r-base | grep ^Build-Depends | grep zlib', and therefore
  *** 'sudo apt-get build-dep r-base' should be sufficient too.
  *** To silence this message, please ensure that :
  *** 1) 'pkg-config --exists zlib' succeeds (i.e. $? -eq 0)
  *** 2) 'pkg-config --libs zlib' contains -lz
  *** Compilation will now be attempted ...
  ** libs
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c assign.c -o assign.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c between.c -o between.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c bmerge.c -o bmerge.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c chmatch.c -o chmatch.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c cj.c -o cj.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c coalesce.c -o coalesce.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c dogroups.c -o dogroups.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fastmean.c -o fastmean.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fcast.c -o fcast.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fifelse.c -o fifelse.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fmelt.c -o fmelt.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c forder.c -o forder.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c frank.c -o frank.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fread.c -o fread.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c freadR.c -o freadR.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c froll.c -o froll.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c frollR.c -o frollR.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c frolladaptive.c -o frolladaptive.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fsort.c -o fsort.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fwrite.c -o fwrite.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c fwriteR.c -o fwriteR.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c gsumm.c -o gsumm.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c ijoin.c -o ijoin.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c init.c -o init.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c inrange.c -o inrange.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c nafill.c -o nafill.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c nqrecreateindices.c -o nqrecreateindices.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c openmp-utils.c -o openmp-utils.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c quickselect.c -o quickselect.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c rbindlist.c -o rbindlist.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c reorder.c -o reorder.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c shift.c -o shift.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c snprintf.c -o snprintf.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c subset.c -o subset.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c transpose.c -o transpose.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c types.c -o types.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c uniqlist.c -o uniqlist.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c utils.c -o utils.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c vecseq.c -o vecseq.o
  clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c wrappers.c -o wrappers.o
  clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o fsort.o fwrite.o fwriteR.o gsumm.o ijoin.o init.o inrange.o nafill.o nqrecreateindices.o openmp-utils.o quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
  ld: warning: text-based stub file /System/Library/Frameworks//CoreFoundation.framework/CoreFoundation.tbd and library file /System/Library/Frameworks//CoreFoundation.framework/CoreFoundation are out of sync. Falling back to library file for linking.
  installing to /Library/Frameworks/R.framework/Versions/3.6/Resources/library/00LOCK-data.table/00new/data.table/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
  Error: package or namespace load failed for ‘data.table’ in library.dynam(lib, package, package.lib):
  shared object ‘datatable.so’ not found
  Error: loading failed
  Execution halted
  ERROR: loading failed
• removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/data.table’
  Warning in install.packages :
  installation of package ‘data.table’ had non-zero exit status

The downloaded source packages are in
‘/private/var/folders/gd/8h092t0n4632bf9yhqrpjzl40000gn/T/RtmpRauEwz/downloaded_packages’

[andresrcs]

@aminrob

Do you want to install from sources the package which needs compilation? (Yes/no/cancel) yes

Try answering "no" to this question, you would get a precompiled binary version that is a little older but much easier to install.
If you need to install the latest version from source, then make sure you have Xcode installed/updated in your system (not in R) and the recommended development tools for macOS systems.
https://cran.r-project.org/bin/macosx/tools/

[jrk]

^ this 1000x

I TA a university course on R programming, so every 3 months I need to help 160+ students get R and R Studio up and running.

The correct answer is almost always to not install from source.

[aminrob]

I typed no instead of yes and now it's working. Thanks so much!