From aixtools at gmail.com  Fri Jan  8 00:17:35 2016
From: aixtools at gmail.com (Michael Felt)
Date: Fri, 8 Jan 2016 00:17:35 +0100
Subject: [Rd] R for AIX - guidance re: error messages requested
Message-ID: <568EF20F.8090606@gmail.com>

Hi all,

With the bug in tre identified I am trying to move forward - one step at 
a time.

As I am getting some errors that prevent make completing with version 
3.2.3, and R-devel introduces new issues (that I will face when I get to 
them) I would appreciate some guidance with output of "make check" (of 
3.1.3) and the final message I run into when trying to build 3.2.3. 
Maybe they are related, maybe not.

In short - where should I be looking in more detail (e.g., with debugger 
again), and are the errors possibly related to a library (e.g., lzma/xz 
as it has been mentioned in other mails).

make check

root at x065:[/data/prj/cran/32/R-3.1.3.1]make check
make[1]: Entering directory '/data/prj/cran/32/R-3.1.3.1/tests'
make[2]: Entering directory '/data/prj/cran/32/R-3.1.3.1/tests'
make[3]: Entering directory '/data/prj/cran/32/R-3.1.3.1/tests/Examples'
Testing examples for package 'base'
Error: testing 'base' failed
Execution halted
Makefile:33: recipe for target 'test-Examples-Base' failed
make[3]: *** [test-Examples-Base] Error 1
make[3]: Leaving directory '/data/prj/cran/32/R-3.1.3.1/tests/Examples'
Makefile.common:166: recipe for target 'test-Examples' failed
make[2]: *** [test-Examples] Error 2
make[2]: Leaving directory '/data/prj/cran/32/R-3.1.3.1/tests'
Makefile.common:154: recipe for target 'test-all-basics' failed
make[1]: *** [test-all-basics] Error 1
make[1]: Leaving directory '/data/prj/cran/32/R-3.1.3.1/tests'
Makefile:236: recipe for target 'check' failed
make: *** [check] Error 2

Failing (64-bit) build of R-3.2.3
begin installing recommended package MASS
* installing *source* package 'MASS' ...
** package 'MASS' successfully unpacked and MD5 sums checked
** libs
         xlc_r -qarch=pwr5 -I/home/cran/64/R/include -DNDEBUG 
-I/usr/local/include      -g  -c MASS.c -o MASS.o
         xlc_r -qarch=pwr5 -I/home/cran/64/R/include -DNDEBUG 
-I/usr/local/include      -g  -c lqs.c -o lqs.o
xlc_r -qarch=pwr5 -Wl,-brtl -Wl,-G -Wl,-bexpall -Wl,-bnoentry -lc 
-L/home/cran/64/R/lib -L/opt/lib -liconv -o MASS.so MASS.o lqs.o -lm 
-L/home/cran/64/R/lib -lR
ld: 0711-224 WARNING: Duplicate symbol: p_xargc
ld: 0711-224 WARNING: Duplicate symbol: p_xargv
ld: 0711-224 WARNING: Duplicate symbol: p_xrcfg
ld: 0711-224 WARNING: Duplicate symbol: p_xrc
ld: 0711-224 WARNING: Duplicate symbol: end
ld: 0711-224 WARNING: Duplicate symbol: .log
ld: 0711-224 WARNING: Duplicate symbol: log
ld: 0711-224 WARNING: Duplicate symbol: .sqrt
ld: 0711-224 WARNING: Duplicate symbol: sqrt
ld: 0711-224 WARNING: Duplicate symbol: guesses
ld: 0711-224 WARNING: Duplicate symbol: .strcmp
ld: 0711-224 WARNING: Duplicate symbol: strcmp
ld: 0711-224 WARNING: Duplicate symbol: .isnan
ld: 0711-224 WARNING: Duplicate symbol: isnan
ld: 0711-224 WARNING: Duplicate symbol: .pow
ld: 0711-224 WARNING: Duplicate symbol: pow
ld: 0711-224 WARNING: Duplicate symbol: .exp
ld: 0711-224 WARNING: Duplicate symbol: exp
ld: 0711-345 Use the -bloadmap or -bnoquiet option to obtain more 
information.
Target "all" is up to date.
installing to /home/cran/64/R/library/MASS/libs
** R
** data
*** moving datasets to lazyload DB
Error in lazyLoadDBinsertVariable(vars[i], from, datafile, ascii, 
compress,  :
   internal error 5 in R_compress3
ERROR: lazydata failed for package 'MASS'
* removing '/home/cran/64/R/library/MASS'
make: 1254-004 The error code from the last command is 1.


Stop.
make: 1254-004 The error code from the last command is 2.


Stop.
make: 1254-004 The error code from the last command is 2.


Stop.
cran at x068:[/home/cran/64/R]



[Rd] R for AIX - guidance re: error messages requested
Michael Felt