[R-SIG-Mac] eigen() with complex matrices

Chabot Denis chabotd at globetrotter.net
Fri Feb 23 15:25:22 CET 2007


Hi,

I do get the problem with my PowerBook G4 aluminium 1.6 GHz with 2 GB  
RAM and Mac OS X 10.4.8.

Here is the crash log.

Denis

Host Name:      LAUchabotd-QC-DFO-MPO-GC-CA
Date/Time:      2007-02-23 08:41:41.837 -0500
OS Version:     10.4.8 (Build 8L127)
Report Version: 4

Command: R
Path:    /Applications/Stats/R.app/Contents/MacOS/R
Parent:  WindowServer [55]

Version: R 2.4.1 GUI 1.18 (4038)

PID:    945
Thread: 0

Exception:  EXC_BAD_ACCESS (0x0001)
Codes:      KERN_PROTECTION_FAILURE (0x0002) at 0x00000000

Thread 0 Crashed:
0   libBLAS.dylib        	0x91f68374 atl_f77wrap_zdotc__ + 80
1   libBLAS.dylib        	0x91f63864 ZDOTC_ + 60
2   libRlapack.dylib     	0x078da530 zhetd2_ + 500 (cmplx.f:8119)
3   libRlapack.dylib     	0x078db22c zhetrd_ + 1744 (cmplx.f:8430)
4   libRlapack.dylib     	0x078da1ec zheev_ + 964 (cmplx.f:7853)
5   lapack.so            	0x06ec065c modLa_rs_cmplx + 384 (Lapack.c:522)
6   libR.dylib           	0x010b073c La_rs_cmplx + 92 (lapack.c:105)
7   libR.dylib           	0x01070944 do_dotcall + 764 (dotcode.c:875)
8   libR.dylib           	0x0109699c Rf_eval + 1508 (eval.c:445)
9   libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
10  libR.dylib           	0x010989b0 do_set + 728 (eval.c:1373)
11  libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
12  libR.dylib           	0x01098a70 do_begin + 84 (eval.c:1108)
13  libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
14  libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
15  libR.dylib           	0x01098a70 do_begin + 84 (eval.c:1108)
16  libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
17  libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
18  libR.dylib           	0x01098a70 do_begin + 84 (eval.c:1108)
19  libR.dylib           	0x01096880 Rf_eval + 1224 (eval.c:431)
20  libR.dylib           	0x01099ecc Rf_applyClosure + 684 (eval.c:614)
21  libR.dylib           	0x0109671c Rf_eval + 868 (eval.c:455)
22  org.R-project.R      	0x00035710 run_REngineRmainloop + 656  
(Rinit.c:429)
23  org.R-project.R      	0x0002d45c -[REngine runREPL] + 76  
(REngine.m:175)
24  org.R-project.R      	0x0001e774 main + 692 (main.m:109)
25  org.R-project.R      	0x000021ec _start + 760
26  org.R-project.R      	0x00001ef0 start + 48

Thread 1:
0   libSystem.B.dylib    	0x9001f08c select + 12
1   org.R-project.R      	0x00009fb4 -[RController readThread:] + 644  
(RController.m:609)
2   com.apple.Foundation 	0x9295f194 forkThreadForFunction + 108
3   libSystem.B.dylib    	0x9002b508 _pthread_body + 96

Thread 2:
0   libSystem.B.dylib    	0x90049ea8 syscall_thread_switch + 8
1   com.apple.Foundation 	0x929775d0 +[NSThread sleepUntilDate:] + 152
2   com.apple.AppKit     	0x93785a10 -[NSUIHeartBeat  
_heartBeatThread:] + 1100
3   com.apple.Foundation 	0x9295f194 forkThreadForFunction + 108
4   libSystem.B.dylib    	0x9002b508 _pthread_body + 96

Thread 0 crashed with PPC Thread State 64:
   srr0: 0x0000000091f68374 srr1:  
0x000000000000f030                        vrsave: 0x0000000000000000
     cr: 0x48002424          xer: 0x0000000020000004   lr:  
0x0000000091f63864  ctr: 0x0000000091f63828
     r0: 0x000000003ffe4f92   r1: 0x00000000bfffce50   r2:  
0x00000000078f5e98   r3: 0x00000000074fbc18
     r4: 0x00000000078f5e98   r5: 0x000000003ff00000   r6:  
0x00000000078f5e98   r7: 0x0000000000000000
     r8: 0x00000000bfffce88   r9: 0x00000000a00060a0  r10:  
0x0000000000000005  r11: 0x00000000078f69c0
    r12: 0x0000000091f63828  r13: 0x0000000000000000  r14:  
0x000000000722e670  r15: 0x00000000bfffcf10
    r16: 0x00000000bfffcf00  r17: 0x0000000000000001  r18:  
0x000000000722e670  r19: 0x00000000bfffd1b9
    r20: 0x00000000bfffd1bc  r21: 0x000000000749bd78  r22:  
0x00000000bfffcefc  r23: 0x00000000bfffd014
    r24: 0x00000000074fbc18  r25: 0x00000000078f5e98  r26:  
0x0000000000000002  r27: 0x0000000001bb6180
    r28: 0x0000000000000001  r29: 0x0000000001bb6190  r30:  
0x00000000bfffcefc  r31: 0x00000000078da344

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Le 07-02-23 à 06:00, r-sig-mac-request at stat.math.ethz.ch a écrit :

> Message: 3
> Date: Thu, 22 Feb 2007 16:37:23 -0500
> From: Simon Urbanek <simon.urbanek at r-project.org>
> Subject: Re: [R-SIG-Mac] eigen() with complex matrices
> To: Tony Chiang <tchiang at fhcrc.org>
> Cc: Robin Hankin <r.hankin at noc.soton.ac.uk>,
> 	r-sig-mac at stat.math.ethz.ch
> Message-ID: <37328D9D-7A96-4E67-9F49-33DB6E910C82 at r-project.org>
> Content-Type: text/plain; charset=US-ASCII; delsp=yes; format=flowed
>
>
> On Feb 22, 2007, at 7:31 AM, Tony Chiang wrote:
>
>> Hi Robin,
>>
>> I have 2.5 (pretty recent) installed my my mac-mini and I don't get
>> the error. I do not run R-2.4.1 so I cannot see if I can reproduce
>> your error. I build R from source rather than using the universal
>> binary though, so try that and see if that helps. Can anyone with
>> R-2.4.1 reproduce this error?
>>
>
> Yes, I can reproduce it with R 2.4.1 on G5 when using vecLib BLAS. It
> doesn't crash when using R's BLAS, so that is a work-around. Given
> that the crash occurs in vecLib and works with with R's BLAS, I'm
> inclined to think that it's a bug in vecLib, but it will require some
> more digging to see if that's really the case...
>
> *Please* when reporting problems include exact information on the
> hardware used - there are simply too many different Mac platforms  
> now...
>
> Thanks,
> Simon
>
>
>
>>> A <- matrix(c(1,0.2+0.1i,0.2-0.1i,1),2,2)
>>> A
>>          [,1]     [,2]
>> [1,] 1.0+0.0i 0.2-0.1i
>> [2,] 0.2+0.1i 1.0+0.0i
>>> eigen(A)
>> $values
>> [1] 1.2236068 0.7763932
>>
>> $vectors
>>                       [,1]                  [,2]
>> [1,] -0.7071068+0.0000000i -0.7071068+0.0000000i
>> [2,] -0.6324555-0.3162278i  0.6324555+0.3162278i
>>
>>> sessionInfo()
>> R version 2.5.0 Under development (unstable) (2007-02-08 r40671)
>> i386-apple-darwin8.8.1
>>
>> locale:
>> C
>>
>> attached base packages:
>> [1] "stats"     "graphics"  "grDevices" "utils"     "datasets"
>> "methods"
>> [7] "base"
>>>
>>
>> Cheers,
>> --Tony
>>
>> On 2/22/07, Robin Hankin <r.hankin at noc.soton.ac.uk> wrote:
>>>
>>> Hello
>>>
>>> I just now get a bus error with R-2.4.1[Universal binary downloaded
>>> from CRAN just now], and also with (recently compiled) R-2.5.0.
>>> I have Xcode 2.4.1.
>>>
>>>
>>>
>>> Under R-2.4.1:
>>>
>>>
>>> octopus:~/scratch% R --vanilla
>>>
>>> R version 2.4.1 (2006-12-18)
>>> Copyright (C) 2006 The R Foundation for Statistical Computing
>>> ISBN 3-900051-07-0
>>>
>>> [snip]
>>>
>>> 'help.start()' for an HTML browser interface to help.
>>> Type 'q()' to quit R.
>>>
>>>
>>>>
>>>> A <- matrix(c(1,0.2+0.1i,0.2-0.1i,1),2,2)
>>>> eigen(A)
>>>
>>> *** caught bus error ***
>>> address 0x1, cause 'invalid alignment'
>>>
>>> Traceback:
>>> 1: .Call("La_rs_cmplx", x, only.values, PACKAGE = "base")
>>> 2: eigen(A)
>>>
>>> Possible actions:
>>> 1: abort (with core dump)
>>> 2: normal R exit
>>> 3: exit R without saving workspace
>>> 4: exit R saving workspace
>>> Selection:
>>>
>>>
>>>
>>> the same thing happens with R-2.5.0
>>>
>>> Anyone?



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