What steps will reproduce the problem?
1.MosaikBuild reference genome
2.MosaikBuild paired-end reads data
2.MosaikAliger using default options
3.MosaikSort
What is the expected output? What do you see instead?
I expected to get the sorted alignment file, but the sorting procedure stopped
after phase 2 without any error or warning report
$ MosaikSort -in alnM.dat -out alnM_sorted.dat
------------------------------------------------------------------------------
MosaikSort 1.0.1388 2010-02-01
Michael Stromberg Marth Lab, Boston College Biology Department
------------------------------------------------------------------------------
- resolving the following types of read pairs: [unique orphans] [unique vs
unique] [unique vs multiple]
- phase 1 of 3: building fragment length distribution:
samples: 1,000,000 (199,960.0 samples/s)
- resolving paired-end alignments
- phase 2 of 3: resolve read pairs:
100%[===========================================================================
=======] 157,406.9 reads/s in 16 s
What version of the product are you using? On what operating system?
MosaikSort 1.0.1388 on GNU/Linux Debian
Original issue reported on code.google.com by youyo...@gmail.com on 29 Jul 2010 at 11:59
Original issue reported on code.google.com by
youyo...@gmail.comon 29 Jul 2010 at 11:59