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RabbitBio / RabbitQCPlus

A more efficient quality control tool for sequencing data
MIT License
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segmentation fault core dumped #5

Closed Rohit-Satyam closed 8 months ago

Rohit-Satyam commented 1 year ago

Hi @ZekunYin @yanlifeng @LeiHaoa @XiaomingXu1995

I was trying to use RabbitQCPlus as a part of nextflow automated pipeline, but I am observing some issues. The tool runs just fine on the raw fastq files but when I perform adapter trimming using porechop_abi it runs fine on few samples but fails for the others

./tools/RabbitQCPlus/RabbitQCPlus -i 02_adapterTrimming/barcode86_sample_4447.fastq --TGS

now auto detect adapter
Segmentation fault (core dumped)

Can you help me with this? I can even share the sample should you like to look into it. PS: I am running this on workstation and the data is small 75MB so memory shouldn't be an issue. The data before trimming was around 100MB and the tool ran fine. Post trimming only sample with 5MB size ran successfully.

Rohit-Satyam commented 1 year ago

rabbit_qc ran fine on all samples on which RabbitQCPlus failed. So it's not the files with fault.

yanlifeng commented 1 year ago

Hi! Can you provide the data? Thanks!

Rohit-Satyam commented 1 year ago

Kindly provide your email ID.

yanlifeng commented 1 year ago

OK! lifeng.yan@mail.sdu.edu.cn

Rohit-Satyam commented 1 year ago

You should have received an email from rohit.satyam@kaust.edu.sa

yanlifeng commented 1 year ago

Thank you very much for identifying the issue and providing the data. We have addressed it in this commit. Best wishes.