segmentation fault when running majiq build

Hasna Khan

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Oct 28, 2021, 5:21:24 PM10/28/21

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Hi all,

I'm attempting to run majiq build on a WSL Ubuntu system. I mounted the windows filesystem and created a python virtual environment as explained. When I try to run the build command, I get a segmentation fault error as soon as majiq begins reading the first .bam file. Does anyone know what might be causing this?

Best,

Hasna

Paul Jewell

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Nov 1, 2021, 10:43:17 AM11/1/21

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Hello, I've not attempted to build using this mechanism so I can't verify that doing so is supported.

Which version of HTSlib did you install?

Can you list the commands that you used for the installation along with their output?

Thanks.

Astrid D

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Nov 26, 2021, 3:16:39 PM11/26/21

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Hi All,

I have the same issue when using HTSlib 1.11

Best,

Astrid

Hasna Khan

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Nov 30, 2021, 4:13:48 PM11/30/21

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Hi Astrid,

I think for me the problem was arising because I generated my .bam files using a pseudoalignment algorithm (Kallisto). When I generated the .bam files using HISAT2 instead, the issue resolved itself.