Hi folks:
I'm trying to compile R-2.0.0 on my Alpha (164SX;
alphapca56-unknown-linux-gnu) running RedHat Linux 7.2 with gcc3.4.1.
Here is where the compile terminates:
....
....
building package 'tcltk'
mkdir -p -- ../../../library/tcltk/R
mkdir -p -- ../../../library/tcltk/demo
mkdir -p -- ../../../library/tcltk/exec
mkdir -p -- ../../../library/tcltk/man
make[4]: Entering directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/t
cltk/src'
making init.d from init.c
making tcltk.d from tcltk.c
make[5]: Entering directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/t
cltk/src'
make[5]: `Makedeps' is up to date.
make[5]: Leaving directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/tc
ltk/src'
make[5]: Entering directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/t
cltk/src'
gcc -I../../../../include -I/usr/local/tcl8.4.7/include
-I/usr/local/tk8.4.7/inc
lude -I/usr/X11R6/include -I/usr/local/include -mieee-with-inexact
-fPIC -g -O
2 -c init.c -o init.o
gcc -I../../../../include -I/usr/local/tcl8.4.7/include
-I/usr/local/tk8.4.7/inc
lude -I/usr/X11R6/include -I/usr/local/include -mieee-with-inexact
-fPIC -g -O
2 -c tcltk.c -o tcltk.o
gcc -shared -L/usr/local/lib -o tcltk.so init.o tcltk.o
-L/usr/local/tcl8.4.7/l
ib -ltcl8.4 -L/usr/local/tk8.4.7/lib -ltk8.4 -L/usr/X11R6/lib -lX11 -ldl
-lieee
-lm -lm -L../../../../lib -lR
mkdir -p -- ../../../../library/tcltk/libs
make[5]: Leaving directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/tc
ltk/src'
make[4]: Leaving directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/tc
ltk/src'
make[3]: Leaving directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library/tc
ltk'
Error in "names<-.default"(`*tmp*`, value = c("R",
"Platform", "Date",
:
names attribute [4] must be the same length as the vector [3]
Execution halted
make[2]: *** [R] Error 1
make[2]: Leaving directory
`/home1/rajiv/software/src-7.2/R-2.0.0/src/library'
make[1]: *** [R] Error 1
make[1]: Leaving directory `/home1/rajiv/software/src-7.2/R-2.0.0/src'
make: *** [R] Error 1
Does this indicate a problem with R, or something in my system
installation? A search on R help list archives did not turn up this
particular error.
Any help is much appreciate.
Rajiv
--------
Rajiv Prasad
Scientist, Hydrology Group
Pacific Northwest National Laboratory, P.O. Box 999, MSIN K9-33
Richland, WA 99352
Voice: (509) 375-2096 Fax: (509) 372-6089 Email: rajiv.prasad@pnl.gov
[[alternative HTML version deleted]]
"Prasad, Rajiv" <Rajiv.Prasad at pnl.gov> writes:> Error in "names<-.default"(`*tmp*`, value = c("R", "Platform", "Date", > : > names attribute [4] must be the same length as the vector [3] > Execution halted > make[2]: *** [R] Error 1 > make[2]: Leaving directory > `/home1/rajiv/software/src-7.2/R-2.0.0/src/library' > make[1]: *** [R] Error 1 > make[1]: Leaving directory `/home1/rajiv/software/src-7.2/R-2.0.0/src' > make: *** [R] Error 1 > > Does this indicate a problem with R, or something in my system > installation? A search on R help list archives did not turn up this > particular error.Specific to your architecture at least (not too many Alphas around, but this works elsewhere). It's a pretty odd bug: It would seem to come from inside .split_description (tools/R/admin.R) where it would indicate that the Built field has less than three "; " separators, but the paste construct in .install_package_description that creates the field does seem to put them in. One conjecture is that a newline sneaked in somehow... I'd first look for malformed DESCRIPTION files in your build directory, then maybe insert some debugging code into .split_description (e.g. print(sys.status());print(Built) immediately before the names<- bit). Are you doing this in a clean directory, btw, or might you possibly be picking up bits of a previous build? -- O__ ---- Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk) FAX: (+45) 35327907
Thanks for the reply, Peter.
The build is done in a clean directory, and --without-tcltk does not
help. I thought it is much better to track this down and fix it anyway.
Agreed there aren't too many Alphas out there anymore, but I plan to
keep mine going for a while -- sweet machine. :-)
So, I looked into the DESCRIPTION file for package tcltk, and here it
is:
[rajiv at localhost tcltk]$ more DESCRIPTION
Package: tcltk
Version: 2.0.0
Priority: base
Title: Tcl/Tk Interface
Author: R Development Core Team
Maintainer: R Core Team <R-core at r-project.org>
Description: Interface and language bindings to Tcl/Tk GUI elements
License: GPL Version 2 or later.
Built: R 2.0.0; alphapca56-unknown-linux-gnu; 2004-10-15 17:25:37;
unix
And for comparison, here is DESCRIPTION from base:
[rajiv at localhost base]$ more DESCRIPTION
Package: base
Version: 2.0.0
Priority: base
Title: The R Base Package
Author: R Development Core Team and contributors worldwide
Maintainer: R Core Team <R-core at r-project.org>
Description: Base R functions
License: GPL Version 2 or later.
Built: R 2.0.0; ; Fri Oct 15 17:20:28 PDT 2004; unix
So your suspicion regarding that newline seems correct. Trouble is, the
newline appears in DESCRIPTION files for grid, splines, tools, methods,
and stats, too. I noticed that grid, splines, methods, and stats built
fine, even though their DESCRIPTION files had the newlines in the Built
field.
I'm going to manually edit the DESCRIPTION files and remove the newlines
and continue with make from the point where it stopped previously.
We'll see if that fixes it. Will edit .split_description to include the
print statements you mentioned.
Thanks again.
Rajiv
> -----Original Message-----
> From: Peter Dalgaard [mailto:p.dalgaard at biostat.ku.dk]
> Sent: Saturday, October 16, 2004 1:33 AM
> To: Prasad, Rajiv
> Cc: r-help at stat.math.ethz.ch
> Subject: Re: [R] Problem Compiling R-2.0.0 on Linux Alpha
>
>
> "Prasad, Rajiv" <Rajiv.Prasad at pnl.gov> writes:
>
> > Error in "names<-.default"(`*tmp*`, value =
c("R",
> "Platform", "Date",
> > :
> > names attribute [4] must be the same length as the
> vector [3]
> > Execution halted
> > make[2]: *** [R] Error 1
> > make[2]: Leaving directory
> > `/home1/rajiv/software/src-7.2/R-2.0.0/src/library'
> > make[1]: *** [R] Error 1
> > make[1]: Leaving directory
> `/home1/rajiv/software/src-7.2/R-2.0.0/src'
> > make: *** [R] Error 1
> >
> > Does this indicate a problem with R, or something in my system
> > installation? A search on R help list archives did not
> turn up this
> > particular error.
>
> Specific to your architecture at least (not too many Alphas
> around, but this works elsewhere). It's a pretty odd bug: It
> would seem to come from inside .split_description
> (tools/R/admin.R) where it would indicate that the Built
> field has less than three "; " separators, but the paste
> construct in .install_package_description that creates the
> field does seem to put them in. One conjecture is that a
> newline sneaked in somehow...
>
> I'd first look for malformed DESCRIPTION files in your build
> directory, then maybe insert some debugging code into
> .split_description (e.g. print(sys.status());print(Built)
> immediately before the names<- bit).
>
> Are you doing this in a clean directory, btw, or might you
> possibly be picking up bits of a previous build?
>
> --
> O__ ---- Peter Dalgaard Blegdamsvej 3
> c/ /'_ --- Dept. of Biostatistics 2200 Cph. N
> (*) \(*) -- University of Copenhagen Denmark Ph:
> (+45) 35327918
> ~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk) FAX:
> (+45) 35327907
>
Peter Dalgaard
2004-Oct-17 13:56 UTC
[Rd] Re: [R] Problem Compiling R-2.0.0 on Linux Alpha
"Prasad, Rajiv" <Rajiv.Prasad@pnl.gov> writes:> Thanks for the reply, Peter. > > The build is done in a clean directory, and --without-tcltk does not > help. I thought it is much better to track this down and fix it anyway. > > Agreed there aren't too many Alphas out there anymore, but I plan to > keep mine going for a while -- sweet machine. :-) > > So, I looked into the DESCRIPTION file for package tcltk, and here it > is: > > [rajiv@localhost tcltk]$ more DESCRIPTION > Package: tcltk > Version: 2.0.0 > Priority: base > Title: Tcl/Tk Interface > Author: R Development Core Team > Maintainer: R Core Team <R-core@r-project.org> > Description: Interface and language bindings to Tcl/Tk GUI elements > License: GPL Version 2 or later. > Built: R 2.0.0; alphapca56-unknown-linux-gnu; 2004-10-15 17:25:37; > unix...> I'm going to manually edit the DESCRIPTION files and remove the newlines > and continue with make from the point where it stopped previously. > We'll see if that fixes it. Will edit .split_description to include the > print statements you mentioned.This would seem to be a bug, somewhere...> db[,"Built"] <- "R 2.0.0; alphapca56-unknown-linux-gnu; 2004-10-15 17:25:37; unix" > dbPackage Version Priority Title Author [1,] "tcltk" "2.0.0" "base" "Tcl/Tk Interface" "R Development Core Team" Maintainer [1,] "R Core Team <R-core@r-project.org>" Description [1,] "Interface and language bindings to Tcl/Tk GUI elements" License [1,] "GPL Version 2 or later." Built [1,] "R 2.0.0; alphapca56-unknown-linux-gnu; 2004-10-15 17:25:37; unix"> write.dcf(db,file="YYYY") > read.dcf("YYYY")Package Version Priority Title Author [1,] "tcltk" "2.0.0" "base" "Tcl/Tk Interface" "R Development Core Team" Maintainer [1,] "R Core Team <R-core@r-project.org>" Description [1,] "Interface and language bindings to Tcl/Tk GUI elements" License [1,] "GPL Version 2 or later." Built [1,] "R 2.0.0; alphapca56-unknown-linux-gnu; 2004-10-15 17:25:37;\nunix" which jives really badly with the if (!is.na(Built <- db["Built"])) { Built <- as.list(strsplit(Built, "; ")[[1]]) names(Built) <- c("R", "Platform", "Date", "OStype") Built[["R"]] <- package_version(sub("^R ([0-9.]+)", "\\1", Built[["R"]])) } inside tools:::.split_description . This is not an architecture-specific bug at all, it just happens to be tickled by the specific length of "alphapca56-unknown-linux-gnu"! I'm unsure whether the problem is in read.dcf or whether split_description could just use strsplit(Built, ";[ \n]") and begone with it. The latter should be a workaround for you in either case. [Moved from r-help to r-devel] -p -- O__ ---- Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~~~~~~~~~ - (p.dalgaard@biostat.ku.dk) FAX: (+45) 35327907