[Insight-developers] gzip and metaIO

Thu Dec 16 08:01:31 EST 2010

Hi Kent,

Le 15 déc. 10 à 16:11, kent williams a écrit :

> I don't see this failure on Mac OS X or on RHEL5 builds.
>
> What's wrong is that I'm printing out an error message when an error
> condition occurs, and the calling code ignores the return code for  
> that
> function, so it goes into an endless loop printing error messages.
>
> This is bad, of course; I'll see if I can figure out how to catch  
> the error
> code and do a more graceful failure.
>
> But the problem shouldn't occur, unless you're not up to date
> ITK/Utilities/MetaIO -- that's the error message you'd see if you  
> tried to
> read a gzipped voxel file, without the fix I recently put into MetaIO.
>
> So I'm concerned that there's something screwed up with the ITK tree  
> your
> machines are trying to test.  An easy test to see if you've got the  
> right
> stuff:
>
> grep inflateInit2 ITK/Utilities/MetaIO/metaUtils.cxx
>
> If it doesn't find that function, your MetaIO is out of date.

that function was there, according to my backups, since 2010-12-03  
01h03m00 (Paris time).

>
> I am testing another change to MetaIO to propogate read errors up  
> the call
> chain, so that this will be an immediate failure rather than an  
> endless
> loop.

It seems to be ok today - this test is green.

   http://www.cdash.org/CDash/viewTest.php?onlyfailed&buildid=802301

Thanks!

Gaëtan

>
> On 12/15/10 5:31 AM, "Gaëtan Lehmann" <gaetan.lehmann at jouy.inra.fr>  
> wrote:
>
>>
>> Hi Kent,
>>
>> For some days, some of my build were failing badly, sometimes  
>> crashing
>> the host where they are running after running short in memory.
>> The problem seems to be with the test itkMetaImageIOGzTest which
>> produce a lot (several GB!) of warnings - see the logs at the end of
>> the mail.
>> ctest can't survive to this huge amount of data and die eventually,
>> without reporting any problem on the dashboard.
>>
>> Any idea on what is wrong?
>>
>> Gaëtan
>>
>>
>> [glehmann at itk1 ITK-sse64]$ ctest -R itkMetaImageIOGzTest -V | head - 
>> n100
>> UpdateCTestConfiguration  from :/home/papha/glehmann/src/tests/ITK-
>> sse64/DartConfiguration.tcl
>> Parse Config file:/home/papha/glehmann/src/tests/ITK-sse64/
>> DartConfiguration.tcl
>>  Add coverage exclude regular expressions.
>>  Add coverage exclude: /CMakeFiles/CMakeTmp/
>>  Add coverage exclude: .*/Testing/.*
>>  Add coverage exclude: .*/Wrapping/.*
>>  Add coverage glob: Source/.*/*.h
>>  Add coverage glob: Source/.*/*.txx
>>  Add coverage glob: Source/.*/*.cxx
>> UpdateCTestConfiguration  from :/home/papha/glehmann/src/tests/ITK-
>> sse64/DartConfiguration.tcl
>> Parse Config file:/home/papha/glehmann/src/tests/ITK-sse64/
>> DartConfiguration.tcl
>> Test project /home/papha/glehmann/src/tests/ITK-sse64
>> Constructing a list of tests
>> Done constructing a list of tests
>> Checking test dependency graph...
>> test 1141
>>     Start 1141: itkMetaImageIOGzTest
>>
>> 1141: Test command: /home/papha/glehmann/src/tests/ITK-sse64/bin/
>> itkIOTests "itkMetaImageIOGzTest" "/home/papha/glehmann/src/tests/ 
>> ITK-
>> sse64/Testing/Temporary"
>> 1141: Test timeout computed to be: 1500
>> 1141: Test whether MetaIO will search for a compressed data file
>> 1141: if it can't find the uncompressed data file
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>> 1141: MET_UncompressStream: ERROR Stream is not valid!
>>
>>
>>
>>
>

-- 
Gaëtan Lehmann
Biologie du Développement et de la Reproduction
INRA de Jouy-en-Josas (France)
tel: +33 1 34 65 29 66    fax: 01 34 65 29 09
http://voxel.jouy.inra.fr  http://www.itk.org
http://www.mandriva.org  http://www.bepo.fr

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