paired-end sample

Issue #68 new
Former user created an issue

I have some confusion for the parameter setting of the mageck-vispr, according to config.yaml template, I input the paired-end fastq file as : samples:
Pos: - qc_fastqs/Pos_FKDL202624913-1a-A8_qc_1.fastq.gz - qc_fastqs/Pos_FKDL202624913-1a-A8_qc_2.fastq.gz

But, in the log of mageck, the first line is 'INFO @ Fri, 15 Jan 2021 12:27:04: Parameters: /software/anaconda3/bin/mageck count --output-prefix results/count/all --norm-method control --list-seq ../library_b.txt --fastq qc_fastqs/Pos_FKDL202624913-1a-A8_qc_1.fastq.gz,qc_fastqs/Pos_FKDL202624913-1a-A8_qc_2.fastq.gz --sample-label Pos --count-pair False --control-sgrna ../library_b_control.txt --trim-5 24 '. It looks like mageck-vispr have identified the two files as technical duplicates rather than paired-end files, did I enter the wrong parameter?

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