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Error running code with single-cell-HiC data #4

@Yassy-Ubuntu

Description

@Yassy-Ubuntu

Hi!
I have a question about running the code with single-cell-HiC data. I downloaded the data from https://www.ebi.ac.uk/ena/browser/view/PRJNA858080. Then I ran the code with Nextflow. I get this error message:


Error executing process > 'unzip (1)'

Caused by:
Process unzip (1) terminated with an error exit status (1)

Command executed:

if [[ SRR20110161.fastq.gz == *.gz ]]; then
unpigz SRR20110161.fastq.gz -p 20 -c > SRR20110161_1.fq
unpigz null -p 20 -c > SRR20110161_2.fq
else
ln -s SRR20110161.fastq.gz SRR20110161_1.fq
ln -s null SRR20110161_2.fq
fi

Command exit status:
1

Command output:
(empty)

Command error:
unpigz: skipping: null does not exist

Work dir:
/home/msbb/Yasmine/test_DLO/work/97/c23805a0de1db40bd67a957a591949

Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run


When I run this code with the paired test file, it works fine. Can I use the code for my specific data (unpaired)?

I was wondering if you could help me with this.

Thank you in advance!

Greetings,
Yasmine

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