MosaikSort never terminates

[GoogleCodeExporter]

What steps will reproduce the problem?
1. MosaikSort -in MosaikAligner_output.dat -out MosaikAligner_output_sorted.dat

What is the expected output? What do you see instead?
The output file is finished and yet the program never terminates

What version of the product are you using? On what operating system?
Mosaik-1.0.1388-Linux-x64.tar && Mosaik-1.0.1388-source.tar tested on
Ubuntu 8.10.

Please provide any additional information below.
I have put debugging printf statements into the code and am baffled as to
where the program gets stuck. Basically, the call to
ses.SaveAlignmentsOrderedByPosition() gets called and a printf just before
the very end of the function appears on the console. But a printf just
after the ses.SaveAlignmentsOrderedByPosition() call never appears. I have
also commented out the bench parts of SortMain.cpp and that has no effect. 

I find it hard to believe that I am the only one with this problem so
assume it may have something to do with my system.

Original issue reported on code.google.com by jia...@gmail.com on 20 May 2010 at 7:19

[GoogleCodeExporter]

It looks I have the same problem. 

Original comment by kodr...@gmail.com on 12 Aug 2010 at 1:06

[GoogleCodeExporter]

Hi there,

The last step in ses.SaveAlignmentsOrderedByPosition() is to delete all 
temporary files. So, I guess MOSAIK fails to handle the files in MOSAIK_TMP.

Please try to export MOSAIK_TMP to other somewhere.

Best,
Wan-Ping

Original comment by WanPing....@gmail.com on 17 Nov 2010 at 7:34

• Changed state: Accepted