If you are using bowtie through tophat and getting this error, here is a work-around for the issue:
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I had this problem when I was using the latest version of Bowtie. Try downgrading to Bowtie2 v2.2.1.
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I have received this error as well, but since I have 160 GB left on my hard drive, it shouldn't be that that's the problem. I've been googling a lot for ways to fix this problem, all to no avail.
I'm using the pre-built executables of Tophat, and I'm trying to run the test in the Tophat manual ("Testing the installation"), which is where I get the error.
Any other ideas on how to solve it? All help is greatly appreciated!
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I had the same message. It was caused by no space left on the disk.
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Bowtie Error while flushing and closing output
Hello,
Here is what I got with Bowtie while mapping two 20 Gb paired-end reads files:
Error while flushing and closing output
terminate called after throwing an instance of 'int'
AbortedTags: None
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