[R] Missing dependencies in pkg installs
Conklin, Mike (GfK)
Mike.Conklin at gfk.com
Fri Jun 23 23:37:42 CEST 2017
Checked all the permissions, and it appears that file_test returns a FALSE and system(ls -l) shows it is executable, so the problem seems to be in R and it's relationship to RHEL. I tried installing R3.3.3 to see if the older version would install stringi and had the same problem so it doesn't appear to be R3.4 related. I am now reaching out to some other sources who may have installed R on similar systems.
From: Conklin, Mike (GfK)
Sent: Friday, June 23, 2017 8:50 AM
To: Don Cohen; Duncan Murdoch
Cc: Martin Maechler; r-help at r-project.org
Subject: RE: [R] Missing dependencies in pkg installs
I had the same thought in the shower this morning but I was disappointed to find that SElinux was disabled on the system. My next step will be to install a previous version of R on the system. My problem is that I am planning a shiny server installation and at least half of the apps on the current system depend on these libraries that will not install.
W. Michael Conklin
EVP Marketing & Data Sciences
T +1 763 417 4545 | M +1 612 567 8287
From: Don Cohen [mailto:don-r-help at isis.cs3-inc.com]
Sent: Thursday, June 22, 2017 6:18 PM
To: Duncan Murdoch
Cc: Conklin, Mike (GfK); Martin Maechler; r-help at r-project.org
Subject: Re: [R] Missing dependencies in pkg installs
Duncan Murdoch writes:
> On 22/06/2017 5:02 PM, Conklin, Mike (GfK) wrote:
> > I am using debug on the .install_packages function...stepping through. Once the temporary folder is created and the tar file expanded I run file_test and get a FALSE back indicating that the configure file is not executable.
> I don't know what is causing this bug. Perhaps a Linux user can > reproduce it and fix it.
> Here's what I see:
> file_test("-x") calls file.access(filename, 1L). That in turn calls the > C library function access(..., X_OK). The ... is the name of the file, > translated into the local encoding and expanded. As far as I can see, > that means ... should be exactly the string below.
> >  "/tmp/RtmpMM6iC1/R.INSTALLc5ca415e4310/stringi"
> The only thing I can think of is that your system is protecting you from > executing a newly created file until some sort of virus or other check > is done. (This is common on Windows, but I've never heard of it before > on Linux.)
Just a thought - are you running SELinux ?
Check the log files for refusals to run programs.
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