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arq5x / Hydra

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Empty hydra-router output file #7

Open przemekl opened 9 years ago

przemekl commented 9 years ago

After starting 'hydra-router -config my.config -routedList routed-files.txt' there are many non-empty files named eg. 'chr10.chr10.+.-' but finally file 'routed-files.txt' is empty. What could be the cause?

ml4wc commented 9 years ago

How are you invoking hydra-router -- directly from the command line or using the hydra-multi.sh run script? If you call the command directly, are there any errors and what are they?

Are you certain that all of the file names in the config file and the extracted bedpes are consistent? Are you positive that all of your samples aligned to the same genome?

przemekl commented 9 years ago

I suppose that requirement in Readme, 'set ulimit -f' should be 'set ulimit -n'. In my case it solved the problem. Please close this issue. Thank you.

ml4wc commented 9 years ago

Okay, glad to hear.