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fastqc not recognized as comand in Windows

Open kaleighbee30 opened this issue 5 months ago • 1 comments

Hello! I'm trying to run FastQC on a group of ~1000 fastq files. I am able to get the GUI to work, but whenever I try to run the command from the Windows command line, I get the error: 'fastqc' is not recognized as an internal or external command, operable program or batch file.

Context if needed: My java version is 22.0.2. The GUI works just fine, but I'd prefer to automate. Other commands in the FastQC folder work as well, like typing in LICENSE.txt will pull up the correct txt file.

kaleighbee30 avatar Sep 01 '24 08:09 kaleighbee30