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duncanca / mosaik-aligner

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Segmentation fault MosaikJump with human genome and #101

Open GoogleCodeExporter opened 8 years ago

GoogleCodeExporter commented 8 years ago 
What steps will reproduce the problem?
   1. Fasta file with human genome (build GRCh37) only chromosomes + MT, in human.fasta
   2. Build colorspace reference using: "MosaikBuild -cs -fr human.fasta -oa human.dat" (works)
   3. Make jump database using: "MosaikJump -ia human.cs.dat -mem 60 -hs 24 -out human.cs.24.jump"

What is the expected output? What do you see instead?
   A jump database

What version of the product are you using? On what operating system?
   Segmentation fault

Please provide any additional information below.
   I have tried several combinations of hash size and memory usage with MosaikJump, however when the hash size gets to big (bigger than 14) the it results in a segmentation fault in the step 'writing jump positions database' at 0%. (So building and sorting the hash works, writing to file fails)

Used architecture: CPU 32 x 2.3 Ghz, RAM 128 GB

Original issue reported on code.google.com by FPRuz...@gmail.com on 11 May 2011 at 3:09