andreacirilloac / ramazon Goto Github PK

Installing ramazon via install_github("andreacirilloac/ramazon") returns the following error:

Error : (converted from warning) /private/var/folders/4_/sc4m82l91s9821d5d63z8zd40000gn/T/Rtmp05lIVJ/R.INSTALL136e4ab2da8c/ramazon/man/ramazon.Rd:27: unexpected UNKNOWN '\warnings'
ERROR: installing Rd objects failed for package ‘ramazon’

• removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/ramazon’
  Error: Failed to install 'ramazon' from GitHub:
  (converted from warning) installation of package ‘/var/folders/4_/sc4m82l91s9821d5d63z8zd40000gn/T//RtmpjQml6Q/file1102b55f24b/ramazon_0.1.tar.gz’ had non-zero exit status

I am getting the following error and R doesn't respond after this:

• installing source package ‘nloptr’ ...
  ** package ‘nloptr’ successfully unpacked and MD5 sums checked
  checking for g++... g++
  checking whether the C++ compiler works... yes
  checking for C++ compiler default output file name... a.out
  checking for suffix of executables...
  checking whether we are cross compiling... no
  checking for suffix of object files... o
  checking whether we are using the GNU C++ compiler... yes
  checking whether g++ accepts -g... yes
  checking how to run the C++ preprocessor... g++ -E
  checking whether we are using the GNU C++ compiler... (cached) yes
  checking whether g++ accepts -g... (cached) yes
  checking for pkg-config... no
  configure: Now testing for NLopt header file.
  checking for grep that handles long lines and -e... /bin/grep
  checking for egrep... /bin/grep -E
  checking for ANSI C header files... yes
  checking for sys/types.h... yes
  checking for sys/stat.h... yes
  checking for stdlib.h... yes
  checking for string.h... yes
  checking for memory.h... yes
  checking for strings.h... yes
  checking for inttypes.h... yes
  checking for stdint.h... yes
  checking for unistd.h... yes
  checking nlopt.h usability... no
  checking nlopt.h presence... no
  checking for nlopt.h... no
  configure: Need to download and build NLopt
  trying URL 'http://ab-initio.mit.edu/nlopt/nlopt-2.4.2.tar.gz'
  Error in download.file(url = "http://ab-initio.mit.edu/nlopt/nlopt-2.4.2.tar.gz", :
  cannot open URL 'http://ab-initio.mit.edu/nlopt/nlopt-2.4.2.tar.gz'
  Execution halted
  /bin/tar: This does not look like a tar archive

gzip: stdin: unexpected end of file
/bin/tar: Child returned status 1
/bin/tar: Error is not recoverable: exiting now
Warning message:
In untar(tarfile = "nlopt-2.4.2.tar.gz") :
'/bin/tar -xf 'nlopt-2.4.2.tar.gz'' returned error code 2
configure: Starting to install library to /tmp/RtmpwjVn6m/R.INSTALL37ee989b20a/nloptr/nlopt-2.4.2
./configure: line 3325: cd: nlopt-2.4.2: No such file or directory

within ramazon_mac function a call is made to https://download3.rstudio.org/ubuntu-12.04/x86_64 in order to download a shiny server version, which is set fixed to 1.5.3.838 ( thanks to the recent update from @ScientistJake ).
We should find a way to make amazon dinamically determine the last version and subsequently redirect himself toward the right url.

we could think about something similar to what is don within updateR function to detect last r version ( https://github.com/AndreaCirilloAC/updateR/blob/master/R/updateR.R)

I'm excited by this new package, but as a Windows user I'm unable to get stuck in just yet. Opening an issue on this so anyone similarly interested can keep track of the progress with a Windows version and contribute if they are able.

Hello,

Once I ran the ramazon function, I am getting:

WELL DONE!
YOU CAN FIND YOUR SHINY APP AT THE FOLLOWING URL:
35.177.231.89:3838/aws_shiny
Warning messages:
1: running command 'chmod 400 C:/Users/Bobi/Documents/aws_shiny/myname.pem' had status 127 
2: running command 'chmod 700 bash_script.sh' had status 127 
3: running command 'ssh -o StrictHostKeyChecking=no -v -i C:/Users/Bobi/Documents/aws_shiny/myname.pem [email protected] 'bash -s' < bash_script.sh' had status 127 
4: running command 'exit' had status 127 
5: running command 'scp -v -i C:/Users/Bobi/Documents/aws_shiny/myname.pem -r C:/Users/Bobi/Documents/aws_shiny [email protected]:/srv/shiny-server/' had status 127 

Any ideas what is going wrong?

Great package! Still (mostly) works really well!

In the end I couldn't use the function but the bash script was a good guide to set up the AWS instance!

The issues I ran into were that the shiny server version is out of date, perhaps theres a way to pull the most up to date version. The other minor problem is that some packages end up in env$other of the sessioninfo so don't get picked up by ramazon and in an unrelated problem some packages fail to install without some other dependencies on ubuntu. This was hard to detect without turning off error sanitizing on shiny server. A useful option could be sanitize_errors = T/F; if true would then overwrite the server configuration file turning off error sanitizing. This makes trouble shouting much easier. Maybe a robust solution to the packages would be to scp the libraries of the attached packages to the server which would also allow for packages installed from sources other than cran but this might be too complicated.

Anyway it's an awesome package/ workflow!

Since all needed packages require to be detected, search() function needs to be replaced with sessionInfo() in order the handle cases where packages are loaded but not attached:
For instance when calling functions using the "::" operator.