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WGLab / LongReadSum

MIT License
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Issue with running LongReadSum #44

Closed doshirLV closed 1 year ago

doshirLV commented 1 year ago

Hi WGLab developers,

I received the following error when running the tool: Total number of bases is not consistent. ERROR:root:Completed with errors.

It is weird because these are new/different samples that I am processing when I ran into the error, but I have previously ran the tool with no issues before (same nucleic acid type, sequencer, and input data type). My command was: python ~/tools/LongReadSum fq -i pass.ND1.fastq -o read_summary.

Thank you for the help, Raj

jonperdomo commented 1 year ago

Hi, can you let us know which version you are using, and possibly an example file so I can try to reproduce the error?

doshirLV commented 1 year ago

Hello,

How can I check the version number? Also because this is private data, I am unable to provide an example file.

Thanks, Raj

jonperdomo commented 1 year ago

It's recommended to download the latest release version: https://github.com/WGLab/LongReadSum/releases/tag/v1.2.0 If you installed via docker, please pull the latest release image specifying the version number: docker pull genomicslab/longreadsum:v1.2.0

I will look into how this error may have occurred.

doshirLV commented 1 year ago

Okay, I reinstalled it by cloning the GitHub repo and running make. I still have the same error. Let me know if there is any other information I can provide you to help investigate the cause of this.

Much appreciated

jonperdomo commented 1 year ago

Okay I fixed a possible issue. Please pull the latest commit from the main branch, run make, and see if the issue is resolved.

doshirLV commented 1 year ago

Hope you had a great weekend Jonathan,

This fixed the issue. I was able to run it and get an output. Thank you so much for your promptness on this matter!

Cheers, Raj

jonperdomo commented 1 year ago

Hi Raj, no problem, happy to hear!