Re: [Rd] R 2.15.2 make check failure on 32-bit --with-blas="-lgoto2"

From: Paul Gilbert <pgilbert902_at_gmail.com>
Date: Fri, 26 Oct 2012 14:58:06 -0400

On 12-10-26 12:15 PM, Prof Brian Ripley wrote:
> On 26/10/2012 16:37, Paul Gilbert wrote:
>> Is --with-blas="-lgoto2" a known problem (other than possibly not being
>> the preferred choice)?
>
> And what precisely is it? And what chipset are you using?
>
>> I thought I had been testing RC with the same setup I regularly use, but
>> I now see there was a slight difference. I am now getting the following
>> failure in make check on 32-bit Ubuntu 12.04, configuring with
>> --with-blas="-lgoto2". (These may not be surprising statistically or
>> numerically, but it is a bit disconcerting when make check fails.)
>
> No failure shown here ... surely you know that the signs of principal
> components are not determined?

I apologize, I missed the real error. (But yes, I am aware of this, and also that I should expect precision differences with different libraries and different architectures.) I thought for a moment that make was throwing an error because of the differences, but in fact it was later:

Testing examples for package ‘grid’

   comparing ‘grid-Ex.Rout’ to ‘grid-Ex.Rout.save’ ... OK Testing examples for package ‘splines’
Error: testing 'splines' failed
Execution halted

make[3]: *** [test-Examples-Base] Error 1
make[3]: Leaving directory `/home/paul/RoboAdmin/R-2.15.2/tests/Examples'
make[2]: *** [test-Examples] Error 2
make[2]: Leaving directory `/home/paul/RoboAdmin/R-2.15.2/tests'
make[1]: *** [test-all-basics] Error 1
make[1]: Leaving directory `/home/paul/RoboAdmin/R-2.15.2/tests'
make: *** [check] Error 2
paul_at_toaster:~/RoboAdmin/R-2.15.2$

The problem seems to be here:

 > source("~/RoboAdmin/R-2.15.2/tests/Examples/splines-Ex.R") List of 2
  $ x: num [1:51] 58 58.3 58.6 58.8 59.1 ...   $ y: num [1:51] 115 115 116 117 117 ...

It also seems that this error is transient. If I rerun several times, it does not always happen. Is anyone aware of other cases of transient problems with 32-bit goto2?

Here is the cpu info:

paul_at_toaster:~$ cat /proc/cpuinfo

processor	: 0
vendor_id	: GenuineIntel
cpu family	: 6
model		: 15
model name	: Intel(R) Core(TM)2 Duo CPU     T7300  @ 2.00GHz
stepping	: 10
microcode	: 0x92
cpu MHz		: 800.000
cache size	: 4096 KB
physical id	: 0
siblings	: 2
core id		: 0
cpu cores	: 2
apicid		: 0
initial apicid	: 0
fdiv_bug	: no
hlt_bug		: no
f00f_bug	: no
coma_bug	: no
fpu		: yes
fpu_exception	: yes
cpuid level	: 10
wp		: yes
flags		: fpu vme de pse tsc msr pae mce cx8 apic mtrr pge mca cmov pat 
pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe nx lm constant_tsc arch_perfmon pebs bts aperfmperf pni dtes64 monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr pdcm lahf_lm ida dtherm tpr_shadow vnmi flexpriority
bogomips	: 3989.99
clflush size	: 64
cache_alignment	: 64
address sizes	: 36 bits physical, 48 bits virtual
power management:
processor	: 1
vendor_id	: GenuineIntel
cpu family	: 6
model		: 15
model name	: Intel(R) Core(TM)2 Duo CPU     T7300  @ 2.00GHz
stepping	: 10
microcode	: 0x92
cpu MHz		: 800.000
cache size	: 4096 KB
physical id	: 0
siblings	: 2
core id		: 1
cpu cores	: 2
apicid		: 1
initial apicid	: 1
fdiv_bug	: no
hlt_bug		: no
f00f_bug	: no
coma_bug	: no
fpu		: yes
fpu_exception	: yes
cpuid level	: 10
wp		: yes
flags		: fpu vme de pse tsc msr pae mce cx8 apic mtrr pge mca cmov pat 
pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe nx lm constant_tsc arch_perfmon pebs bts aperfmperf pni dtes64 monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr pdcm lahf_lm ida dtherm tpr_shadow vnmi flexpriority
bogomips	: 3989.97
clflush size	: 64
cache_alignment	: 64
address sizes	: 36 bits physical, 48 bits virtual
power management:

Paul

>
> And 32-bit platforms seem prone to round in different ways (to each
> other and to 64-bit platforms): the differences in the last digit are
> typical of 32-bit platforms.
>
>> ...
>> Testing examples for package ‘stats’
>> comparing ‘stats-Ex.Rout’ to ‘stats-Ex.Rout.save’ ...
>> 2959c2959
>> < N:K 1 33.13 33.13 2.146 0.16865
>> ---
>> > N:K 1 33.14 33.14 2.146 0.16865
>> 12782c12782
>> < Murder -0.536 0.418 0.341 0.649
>> ---
>> > Murder -0.536 0.418 -0.341 0.649
>> 12783c12783
>> < Assault -0.583 0.188 0.268 -0.743
>> ---
>> > Assault -0.583 0.188 -0.268 -0.743
>> 12784c12784
>> < UrbanPop -0.278 -0.873 0.378 0.134
>> ---
>> > UrbanPop -0.278 -0.873 -0.378 0.134
>> 12785c12785
>> < Rape -0.543 -0.167 -0.818
>> ---
>> > Rape -0.543 -0.167 0.818
>> 12943c12943
>> < 6 -0.5412 20.482886 -0.845157
>> ---
>> > 6 -0.5412 20.482887 -0.845157
>> 14481c14481
>> < Sum of Squares 780.1250 276.1250 2556.1250 112.5000 774.0937
>> ---
>> > Sum of Squares 780.1250 276.1250 2556.1250 112.5000 774.0938
>> 15571c15571
>> < Murder -0.54 0.42 0.34 0.65
>> ---
>> > Murder -0.54 0.42 -0.34 0.65
>> 15572c15572
>> < Assault -0.58 0.27 -0.74
>> ---
>> > Assault -0.58 -0.27 -0.74
>> 15573c15573
>> < UrbanPop -0.28 -0.87 0.38
>> ---
>> > UrbanPop -0.28 -0.87 -0.38
>> 15574c15574
>> < Rape -0.54 -0.82
>> ---
>> > Rape -0.54 0.82
>> Testing examples for package ‘datasets’
>> comparing ‘datasets-Ex.Rout’ to ‘datasets-Ex.Rout.save’ ... OK
>> ...
>>
>> I inadvertently seemed to have set things slightly differently while
>> testing RC. While testing the RC, I was using
>> ./configure --prefix=/home/paul/RoboRC/R-test/ --enable-R-shlib
>>
>> and configure gave
>> ...
>> External libraries: readline
>> Additional capabilities: PNG, NLS
>> Options enabled: shared R library, shared BLAS, R
>> profiling, Java
>>
>> whereas with the release I used
>> ./configure --prefix=/home/paul/RoboAdmin/R-2.15.2 --enable-R-shlib
>> --with-blas="-lgoto2"
>>
>> and configure gave
>> ...
>> External libraries: readline, BLAS(generic)
>> Additional capabilities: PNG, NLS
>> Options enabled: shared R library, R profiling, Java
>>
>> Thanks,
>> Paul
>>
>> ______________________________________________
>> R-devel_at_r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel
>
>



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