Hi,
I've successfully updated our linux version of R to 2.9.0 but am
having trouble on our solaris machine. I had previously installed
2.8.1 and earlier versions without trouble.
I'm using R-patched_2009-05-20.tar.gz (I had also tried the 2009-05-10
version). Here's some info on our machine (I'm not the sysadmin):
[2] bedrock:/home/jayoung> uname -a
SunOS bedrock 5.10 Generic_118833-36 sun4v sparc SUNW,Sun-Fire-T200
Here's how I have been successfully installing the last few versions
of R:
setenv LD_LIBRARY_PATH /home/jayoung/mysql/mysql-5.0.45-solaris10-
sparc-64bit/lib:/opt/SUNWspro/lib:/usr/lib:/usr/openwin/lib
setenv PATH /home/jayoung/mysql/mysql-5.0.45-solaris10-sparc-64bit/lib/
bin:/bin:/sbin:/usr/sbin:/etc:/opt/SUNWspro/bin:/usr/ccs/bin
unsetenv R_HOME
./configure --enable-R-shlib R_PAPERSIZE='letter' --prefix='/home/
btrask/traskdata'
make
make install
Now, when I do that, configure looks like it completes OK, but during
"make" it fails. It also fails if I omit the
"--enable-R-shlib"
during configure.
It fails in a different way if I use my regular environment (i.e.
start a new terminal, and use the commands as above but omitting the
two setenv lines) - but that has never worked, so I won't bother you
with the details of that (unless it seems like useful information to
someone?). The setenvs I'm using (PATH and LD_LIBRARY_PATH) were given
to me by the syadmin people here as a suggestion to get R installation
working.
Below I have pasted the last part of the output from make:
>>> Building/Updating help pages for package 'tcltk'
Formats: text html latex example
TclInterface text html latex example
TkCommands text html latex example
TkWidgetcmds text html latex example
TkWidgets text html latex example
tclServiceMode text html latex example
tcltk-defunct text html latex
tcltk-package text html latex
tkProgressBar text html latex example
tkStartGUI text html latex
tk_choose.dir text html latex example
tk_choose.files text html latex example
tk_messageBox text html latex
tk_select.list text html latex
tkpager text html latex
begin installing recommended package VR
ERROR unable to create '/home/jayoung/source_codes/R/R-2.9.0/
unpack_solaris3/R-patched/library/MASS'
*** Error code 1
The following command caused the error:
MAKE="make" R_LIBS= ../../../bin/R CMD INSTALL --no-lock -l
"../../../
library" VR.tgz > VR.ts.out 2>&1 || (cat VR.ts.out &&
exit 1)
make: Fatal error: Command failed for target `VR.ts'
Current working directory /home/jayoung/source_codes/R/R-2.9.0/
unpack_solaris3/R-patched/src/library/Recommended
*** Error code 1
The following command caused the error:
make stamp-recommended
make: Fatal error: Command failed for target `recommended-packages'
Current working directory /home/jayoung/source_codes/R/R-2.9.0/
unpack_solaris3/R-patched/src/library/Recommended
*** Error code 1
The following command caused the error:
(cd src/library/Recommended && make)
make: Fatal error: Command failed for target `stamp-recommended'
I'm not sure if this is a bug, or something screwy about the way our
system is set up (I suspect the latter). I'd be grateful for any
ideas you might have to help me figure this out.
thanks in advance,
Janet Young
-------------------------------------------------------------------
Dr. Janet Young (Trask lab)
Fred Hutchinson Cancer Research Center
1100 Fairview Avenue N., C3-168,
P.O. Box 19024, Seattle, WA 98109-1024, USA.
tel: (206) 667 1471 fax: (206) 667 6524
email: jayoung ...at... fhcrc.org
http://www.fhcrc.org/labs/trask/
