[Debian-med-packaging] Bug#977021: bus errors on armhf running on a 64bit kernel

[Pierre Gruet]

Dear Bernd,

Le 10/12/2020 à 18:45, Bernd Rinn a écrit :
> Dear Pierre,
> 
> No, I've not yet seen this bus error. I can see two changes to my test 
> setup:
> 
> - JDK 11 instead of JDK 8
> - 64bit OS instead of 32 bit OS
> 
> The 64bit platoform is more likely to be the change that uncovers this 
> bug. Which hardware did you get the error on?

Thanks for your quick answer. I also think it is due to the 64bit OS.
Unfortunately I don't have much information about the hardware on which 
we got the error, it is a Debian machine... but I confirm this is an 
armhf 64bit architecture.
There are some other armhf 64bits machines on which the tests seem to 
pass, I'm a bit puzzled and cannot understand why.

For what it's worth, we get the same failure on sparc64:

https://buildd.debian.org/status/fetch.php?pkg=libsis-base-java&arch=sparc64&ver=18.09%7Epre1%2Bgit20180928.45fbd31%2Bdfsg-2&stamp=1607325724&raw=0

I hope this can help. If you think it is worth investigating further the 
architecture of the failing machine please tell me!

> 
> All the best,
> Bernd

Best regards,
Pierre

> 
> On 12/10/20 5:45 PM, Pierre Gruet wrote:
>> Control: forwarded -1 brinn at ethz.ch
>>
>>
>> Dear Bernd,
>>
>> In Debian we have received a bug report you may find below: there 
>> seems to be an unaligned memory access in (seemingly) the JNI part of 
>> sis-base version 18.09, leading to a failure on the architecture armhf 
>> running on a 64bit kernel.
>>
>> Have you already met this issue and do you see how it might be fixed?
>>
>> Thanks a lot,
>> Pierre Gruet
>>
>>
>> On Thu, 10 Dec 2020 07:15:24 +0100 Matthias Klose <doko at debian.org> 
>> wrote:
>>  > Package: src:libsis-base-java
>>  > Version: 18.09~pre1+git20180928.45fbd31+dfsg-2
>>  > Severity: important
>>  > Tags: sid bullseye
>>  >
>>  > building libsis-base-java (or running the jni) leads to a bus 
>> error, usually
>>  > caused by unaligned memory accesses.
>>  >
>>  > [...]
>>  > LC_ALL=C java -Djava.library.path=source/c/.libs -classpath 
>> sis-base-test.jar
>>  > ch.systemsx.cisd.base.AllTests
>>  > Application: base
>>  > Version: UNKNOWN*
>>  > Java VM: OpenJDK Server VM (v11.0.9.1+1-Debian-1)
>>  > CPU Architecture: arm
>>  > OS: Linux (v4.15.0-126-generic)
>>  > Test class: NativeDataTests
>>  >
>>  > Running testFloatToByteNonNativeByteOrderPartialOutputArray
>>  > Running testIntToByteToInt
>>  >  Arguments: [0, 0]
>>  >  Arguments: [0, 1]
>>  > #
>>  > # A fatal error has been detected by the Java Runtime Environment:
>>  > #
>>  > #  SIGBUS (0x7) at pc=0xf74b1d1c, pid=10186, tid=10187
>