[R-SIG-Mac] test failures

Simon Urbanek simon.urbanek at r-project.org
Fri Jul 1 04:13:06 CEST 2011 

FWIW R built the official way doesn't have such problems, so I would not be surprised that it is an issue with your toolchain and/or the way you build R. Fink 
has been historically known for having issues with compilers (and library mismatches) so I would suggest looking at your end of the affair. For comparison the most recent builds and check results using the official tools are available at
http://r.research.att.com/

Cheers,
Simon



On Jun 30, 2011, at 9:59 PM, Duncan Murdoch wrote:

> On 11-06-30 9:48 PM, BABA Yoshihiko wrote:
>> Dear all,
>> 
>> I am a MacOSX/Fink (which is more or less like Debian's APT) maintainer and making R binary. One of the users tried test suite with make -k check and get the following results. Some differences are numerical, while others show sign differences in the result.
>> 
>> Could someone possible explain/fix them?
> 
> You need to examine the differences, and decide which ones are problems, and which ones are inconsequential.  If you think something is a problem, then tell us that.
> 
> Sometimes numerical differences (including signs) matter, and sometimes they don't.
> 
> Duncan Murdoch
> 
>> 
>> Thanks
>> 
>> --------
>> 
>> #!/bin/sh -ev
>> make -k check || exit 2
>> make[2]: warning: jobserver unavailable: using -j1.  Add `+' to parent make rule.
>> WARNING: ignoring environment value of R_HOME
>> Testing examples for package 'base'
>> Testing examples for package 'tools'
>>  comparing 'tools-Ex.Rout' to 'tools-Ex.Rout.save' ... OK
>> Testing examples for package 'utils'
>> Testing examples for package 'grDevices'
>>  comparing 'grDevices-Ex.Rout' to 'grDevices-Ex.Rout.save' ...
>> 1951c1951
>> <  [1,]  0.00000   0.000000  0.000000e+00
>> ---
>>> [1,]  0.00000  0.000000e+00  0.000000e+00
>> 1952c1952
>> <  [2,] 53.48418 175.364685  3.780017e+01
>> ---
>>> [2,] 53.48418  1.753647e+02  3.780017e+01
>> 1953c1953
>> <  [3,] 71.91841 -68.706608  8.786408e+01
>> ---
>>> [3,] 71.91841 -6.870661e+01  8.786408e+01
>> 1954c1954
>> <  [4,] 32.24075  -9.660595 -1.301930e+02
>> ---
>>> [4,] 32.24075 -9.660595e+00 -1.301930e+02
>> 1955c1955
>> <  [5,] 91.01106 -71.173035 -1.534147e+01
>> ---
>>> [5,] 91.01106 -7.117303e+01 -1.534147e+01
>> 1956c1956
>> <  [6,] 60.50231  84.566776 -1.081465e+02
>> ---
>>> [6,] 60.50231  8.456678e+01 -1.081465e+02
>> 1957c1957
>> <  [7,] 97.14950   7.898148  1.064410e+02
>> ---
>>> [7,] 97.14950  7.898148e+00  1.064410e+02
>> 1958c1958
>> <  [8,] 76.97594   0.000000 -5.554930e-14
>> ---
>>> [8,] 76.97594 -2.777465e-14 -5.554930e-14
>> Testing examples for package 'graphics'
>>  comparing 'graphics-Ex.Rout' to 'graphics-Ex.Rout.save' ... OK
>> Testing examples for package 'stats'
>>  comparing 'stats-Ex.Rout' to 'stats-Ex.Rout.save' ...
>> 6355c6355
>> <  Grand Mean: 291.5937
>> ---
>>> Grand Mean: 291.5938
>> 12721c12721
>> <  Murder   -0.536  0.418 -0.341 -0.649
>> ---
>>> Murder   -0.536  0.418 -0.341  0.649
>> 12722c12722
>> <  Assault  -0.583  0.188 -0.268  0.743
>> ---
>>> Assault  -0.583  0.188 -0.268 -0.743
>> 12723c12723
>> <  UrbanPop -0.278 -0.873 -0.378 -0.134
>> ---
>>> UrbanPop -0.278 -0.873 -0.378  0.134
>> 14355c14355
>> <  Grand Mean: 291.5937
>> ---
>>> Grand Mean: 291.5938
>> 15442c15442
>> <  Murder   -0.54   0.42  -0.34  -0.65
>> ---
>>> Murder   -0.54   0.42  -0.34   0.65
>> 15443c15443
>> <  Assault  -0.58         -0.27   0.74
>> ---
>>> Assault  -0.58         -0.27  -0.74
>> Testing examples for package 'datasets'
>>  comparing 'datasets-Ex.Rout' to 'datasets-Ex.Rout.save' ... OK
>> Testing examples for package 'methods'
>>  comparing 'methods-Ex.Rout' to 'methods-Ex.Rout.save' ... OK
>> Testing examples for package 'grid'
>>  comparing 'grid-Ex.Rout' to 'grid-Ex.Rout.save' ... OK
>> Testing examples for package 'splines'
>>  comparing 'splines-Ex.Rout' to 'splines-Ex.Rout.save' ... OK
>> Testing examples for package 'stats4'
>>  comparing 'stats4-Ex.Rout' to 'stats4-Ex.Rout.save' ... OK
>> Testing examples for package 'tcltk'
>> Testing examples for package 'compiler'
>> make[2]: warning: jobserver unavailable: using -j1.  Add `+' to parent make rule.
>> running strict specific tests
>> running code in 'eval-etc.R' ... OK
>>  comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [eval-etc.Rout] Error 1
>> running code in 'simple-true.R' ... OK
>>  comparing 'simple-true.Rout' to './simple-true.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [simple-true.Rout] Error 1
>> running code in 'arith-true.R' ... OK
>>  comparing 'arith-true.Rout' to './arith-true.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [arith-true.Rout] Error 1
>> running code in 'arith.R' ... OK
>>  comparing 'arith.Rout' to './arith.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [arith.Rout] Error 1
>> running code in 'lm-tests.R' ... OK
>>  comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [lm-tests.Rout] Error 1
>> running code in 'ok-errors.R' ... OK
>>  comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [ok-errors.Rout] Error 1
>> running code in 'method-dispatch.R' ... OK
>>  comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [method-dispatch.Rout] Error 1
>> running code in 'array-subset.R' ... OK
>>  comparing 'array-subset.Rout' to './array-subset.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [array-subset.Rout] Error 1
>> running code in 'any-all.R' ... OK
>>  comparing 'any-all.Rout' to './any-all.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [any-all.Rout] Error 1
>> running code in 'd-p-q-r-tests.R' ... OK
>>  comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ...WARNING: ignoring environment value of R_HOME
>> 1d0
>> <  WARNING: ignoring environment value of R_HOME
>> make[3]: *** [d-p-q-r-tests.Rout] Error 1
>> make[3]: Target `test-Specific-strict' not remade because of errors.
>> make[2]: *** [test-Specific] Error 2
>> make[1]: *** [test-all-basics] Error 1
>> make[1]: Target `check' not remade because of errors.
>> make: *** [check] Error 2
>> 
>> 
>> 
>> 
>> 
>> --
>> BABA Yoshihiko
>> Urban Design Laboratory, Tokyo University
>> TEL: +81 (0)90 1738 7439
>> 
>> _______________________________________________
>> R-SIG-Mac mailing list
>> R-SIG-Mac at r-project.org
>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
> 
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