duncanca / mosaik-aligner

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MosaikSort cannot run!!! #50

Open GoogleCodeExporter opened 9 years ago

GoogleCodeExporter commented 9 years ago
i used 454 datasets
commandlines are as follow:

./MosaikBuild -fr ../Sample_1_454LargeContigs.fna -oa self_assembley.ref.dat

./MosaikBuild -fr ../RL8.sff.fasta -fq RL8.sff.fasta.qual -out RL8.bult.dat
-st 454
./MosaikBuild -fr ../RL8.sff.fasta -fq ../RL8.sff.fasta.qual -out
RL8.bult.dat -st 454
./MosaikJump -ia self_assembley.ref.dat -out self_assembley.ref.jump -hs 15

when  i ran :
./MosaikSort -in RL8.aligned -out RL8.aligned.sorted
------------------------------------------------------------------------------
MosaikSort 0.9.0891                                                 2009-01-31
Michael Stromberg                 Marth Lab, Boston College Biology Department
------------------------------------------------------------------------------

- skipping all non-uniquely aligned reads

- phase 1 of 2: serialize alignments:
*** glibc detected *** /home/oblab/Desktop/gigabayes_mosaik/bin/MosaikSort:
free(): invalid pointer: 0x081b0840 ***
======= Backtrace: =========
[0x80ead9e]
[0x80ecbf6]
[0x80bd6d1]
[0x80bd6fd]
[0x805e5ff]
[0x805547c]
[0x80532fc]
[0x80519a5]
[0x80cd32a]
[0x8048171]
======= Memory map: ========
08048000-08184000 r-xp 00000000 08:01 1925130   
/home/oblab/Desktop/gigabayes_mosaik/bin/MosaikSort
08184000-08186000 rw-p 0013c000 08:01 1925130   
/home/oblab/Desktop/gigabayes_mosaik/bin/MosaikSort
08186000-1b2cf000 rw-p 08186000 00:00 0          [heap]
b7e00000-b7e24000 rw-p b7e00000 00:00 0 
b7e24000-b7f00000 ---p b7e24000 00:00 0 
b7f7a000-b7f7c000 rw-p b7f7a000 00:00 0 
b7f7c000-b7f7d000 r-xp b7f7c000 00:00 0          [vdso]
bfcbb000-bfcd0000 rw-p bffeb000 00:00 0          [stack]
Aborted
i do not know how to figure it out?
anyone can help?

software version is 0.9.0891, which is the latest one.

Original issue reported on code.google.com by elzedliu on 14 Apr 2010 at 10:44

GoogleCodeExporter commented 9 years ago
My MosaikSort is the same version and appears the same problem

Original comment by luciana....@gmail.com on 29 Apr 2012 at 12:06

GoogleCodeExporter commented 9 years ago
My MosaikSort is the same version and appears the same problem

Original comment by luciana....@gmail.com on 29 Apr 2012 at 12:06