[mira_talk] MIRA internal error
- From: Torben Nielsen <torben@xxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Sun, 9 Feb 2014 18:19:45 -1000
Bastien,
MIRA just aborted on me :-( Here is the end of the log. Please let me know if
you want more than this. I’m working with large datasets and they generate huge
logs so I can’t e-mail it.
Thanks, Torben
This is MIRA 4.0 .
Please cite: Chevreux, B., Wetter, T. and Suhai, S. (1999), Genome Sequence
Assembly Using Trace Signals and Additional Sequence Information.
Computer Science and Biology: Proceedings of the German Conference on
Bioinformatics (GCB) 99, pp. 45-56.
To (un-)subscribe the MIRA mailing lists, see:
http://www.chevreux.org/mira_mailinglists.html
After subscribing, mail general questions to the MIRA talk mailing list:
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To report bugs or ask for features, please use the SourceForge ticketing
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This ensures that requests do not get lost.
Compiled by: bach
Sun Feb 2 18:25:59 CET 2014
On: Linux vk10464 2.6.32-41-generic #94-Ubuntu SMP Fri Jul 6 18:00:34 UTC 2012
x86_64 GNU/Linux
Compiled in boundtracking mode.
Compiled in bugtracking mode.
Compiled with ENABLE64 activated.
Runtime settings (sorry, for debug):
Size of size_t : 8
Size of uint32 : 4
Size of uint32_t: 4
Size of uint64 : 8
Size of uint64_t: 8
Current system: Linux demeter 2.6.32-431.3.1.el6.x86_64 #1 SMP Fri Jan 3
21:39:27 UTC 2014 x86_64 x86_64 x86_64 GNU/Linux
Manifest:
projectname: P16_1002_0500m
job: genome,denovo,accurate
parameters: -SK:not=12:mchr=16384 -AS:nop=6:sd=yes -HS:ldn=yes
SOLEXA_SETTINGS -AS:ardct=3.0 SOLEXA_SETTINGS -CL:pec=yes:spx174
[torben@demeter P16_1002_0500m_d_tmp]$ tail -50 ../../log.txt
AS_used_ids: 82470846 79 MiB 0 B 2 B
AS_multicopies: 82470846 79 MiB 0 B 2 B
AS_hasmcoverlaps: 0 79 MiB 79 MiB 2 B
AS_maxcoveragereached: 82470846 315 MiB 0 B 0 B
AS_coverageperseqtype: 0 24 B 0 B 0 B
AS_istroublemaker: 82470846 79 MiB 0 B 2 B
AS_isdebris: 82470846 79 MiB 0 B 2 B
AS_needalloverlaps: 82470846 79 MiB 0 B 2 B
AS_readsforrepeatresolve: 0 40 B 0 B 0 B
AS_allrmbsok: 0 315 MiB 315 MiB 0 B
AS_probablermbsnotok: 0 315 MiB 315 MiB 0 B
AS_weakrmbsnotok: 0 315 MiB 315 MiB 0 B
AS_readmaytakeskim: 0 40 B 0 B 0 B
AS_skimstaken: 0 40 B 0 B 0 B
AS_numskimoverlaps: 0 24 B 0 B 0 B
AS_numleftextendskims: 0 24 B 0 B 0 B
AS_rightextendskims: 0 24 B 0 B 0 B
AS_skimleftextendratio: 0 24 B 0 B 0 B
AS_skimrightextendratio: 0 24 B 0 B 0 B
AS_usedtmpfiles: 20 656 B 0 B 0 B
Total: 27117528584 (25.3 GiB)
================================================================================
Dynamic s allocs: 2
Dynamic m allocs: 0
Align allocs: 2
Internal logic/programming/debugging error (*sigh* this should not have
happened)
********************************************************************************
* P16_1002_0500m_349316/1: Found diginorm multiplier of 0? *
********************************************************************************
->Thrown: int32 Read::getDigiNormMultiplier() const
->Caught: main
Aborting process, probably due to an internal error.
If you want to report the error, please do so on
http://sourceforge.net/p/mira-assembler/tickets/
and also give a short notice on the mira talk mailing list.
If reporting, please do not delete the log and checkpoint directories, there may
be files in them which could be needed to find the problem.
Subscribing / unsubscribing to mira talk, see:
//www.freelists.org/list/mira_talk
CWD: /data/torben/P16_1002_0500m
Thank you for noticing that this is *NOT* a crash, but a
controlled program stop.
Failure, wrapped MIRA process aborted.
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