Got past my libgfortran issue
ln -s /usr/lib64/libgfortran.so.3 /usr/lib/libgfortran.so
Now if I could get RCurl and rstan installed.
Thanks,
Larry
-----Original Message-----
From: Tom Callaway [mailto:tcallawa at redhat.com]
Sent: Friday, January 29, 2016 2:46 PM
To: Patrick, Larry B [CSSM] <longplay at iastate.edu>; 'r-sig-fedora
at r-project.org' <r-sig-fedora at r-project.org>
Subject: Re: [R-sig-Fedora] rstan warning messages
On 01/28/2016 09:07 AM, Patrick, Larry B [CSSM] wrote:> Looks to have libgfortran installed.
> yum list installed | grep libgfortran
> libgfortran.x86_64 4.4.7-16.el6
@rhel-x86_64-server-6
> What else could I check?
>
> Installed libcurl-devel and libidn-devel.
> yum list installed | grep libcurl
> libcurl.x86_64 7.19.7-46.el6
@rhel-x86_64-server-6
> libcurl-devel.x86_64 7.19.7-46.el6
@rhel-x86_64-server-6
> Still getting warning for RCurl.
> 2: In install.packages("rstan", dependencies = TRUE, repos =
> "http://cran.r-project.org/") : installation of package
'RCurl' had non-zero exit status Now this log is way different and I
have tried to pick through the warning and error messages.
> Any thoughts here?
RHEL-6 is getting long in the tooth, at almost six years old. It's quite
possible that these R modules are checking for modern dependencies and not
finding them.
That said, something strange is definitely happening here. You're getting
this error message:
No package 'libcurl' found
That normally means that it could not find the pkgconfig file for
'libcurl', but I've pulled down the libcurl-devel package that you
installed and it definitely has:
/usr/lib64/pkgconfig/libcurl.pc
I think the only way I'm going to be able to troubleshoot this is to bring
up a RHEL 6 VM and try it myself.
~tom
=Red Hat
On 02/01/2016 03:45 PM, Patrick, Larry B [CSSM] wrote:> Got past my libgfortran issue > ln -s /usr/lib64/libgfortran.so.3 /usr/lib/libgfortran.soMaybe to /usr/lib64/libgfortran.so ? You _should not_ need to do that though. I didn't need to.> Now if I could get RCurl and rstan installed.This one is perplexing. I can't reproduce your failures from my RHEL-6 VM. Can you provide me the output from: rpm -qf /usr/lib64/pkgconfig/libcurl.pc rpm -q pkgconfig Also, if you can run the install.packages again and send me the full log, that might be helpful. ~tom =Red Hat
Tom,
First of thanks for setting up your RHEL-6 VM to help me!
Until I did that link it would not install. I didn't have any libgfortran
files in /usr/lib so I did that soft link. Maybe something didn't fully
install or configure. I have inherited this machine from another admin and it is
not a fresh installation.
[root at ping /]# ls -l /usr/lib64/libgfortran*
lrwxrwxrwx 1 root root 20 Jul 23 2015 /usr/lib64/libgfortran.so.3
-> libgfortran.so.3.0.0
-rwxr-xr-x 1 root root 990504 Jun 1 2015 /usr/lib64/libgfortran.so.3.0.0
[root at ping /]# ls -l /usr/lib/libgfortran*
lrwxrwxrwx 1 root root 27 Feb 1 14:36 /usr/lib/libgfortran.so ->
/usr/lib64/libgfortran.so.3
Requested information for RCurl
[root at ping /]# rpm -qf /usr/lib64/pkgconfig/libcurl.pc
libcurl-devel-7.19.7-46.el6.x86_64
[root at ping /]# rpm -q pkgconfig
pkgconfig-0.23-9.1.el6.x86_64
Attached is RCurl_logs.txt. Let me know if you would rather have it right in the
email as it is extremely long log.
Thanks,
Larry
-----Original Message-----
From: Tom Callaway [mailto:tcallawa at redhat.com]
Sent: Tuesday, February 02, 2016 10:35 AM
To: Patrick, Larry B [CSSM] <longplay at iastate.edu>; 'r-sig-fedora
at r-project.org' <r-sig-fedora at r-project.org>
Subject: Re: [R-sig-Fedora] rstan warning messages
On 02/01/2016 03:45 PM, Patrick, Larry B [CSSM] wrote:> Got past my libgfortran issue
> ln -s /usr/lib64/libgfortran.so.3 /usr/lib/libgfortran.so
Maybe to /usr/lib64/libgfortran.so ? You _should not_ need to do that though. I
didn't need to.
> Now if I could get RCurl and rstan installed.
This one is perplexing. I can't reproduce your failures from my RHEL-6 VM.
Can you provide me the output from:
rpm -qf /usr/lib64/pkgconfig/libcurl.pc
rpm -q pkgconfig
Also, if you can run the install.packages again and send me the full log, that
might be helpful.
~tom
=Red Hat
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