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TrimReads for popoolation error #534

@r-mashoodh

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@r-mashoodh

Hello,

I am trying to run the following

java -jar software/ReadTools.jar TrimReads --minReadLength 30 --disable5pTrim --input raw_data/S1_L2_1.fq --output S1_trimmed_1.fq

to mimic the Popoolation manual

however I get the following error:

A USER ERROR has occurred: Invalid output format for S1_trimmed_1.fq: extension should match one of .sam, .bam, .cram

Shouldn't the output be fq?

Thanks so much

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