Strange, FastQC doesn't work on windows, any suggestions?
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8 months ago
seta ★ 1.5k

Dear all,

Sorry, I have a problem with a very simple program, FASTQC. I double click on the "run_fastqc.bat" file, but it didn't work. I also tried to run the program via cmd windows, still didn't work. I have no problem with Linux but I would like to understand what is the problem of FASTQC on windows? Could you please share me your suggestion?

Thanks

Fastqc NGS • 456 views
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In general I would suggest using the windows subsystem for linux to run software on windows. Most software works and is actively maintained for linux, and not so much for windows.

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Completely agree. I would like to see the graphical HTML report of FASTQC. But, at the moment, I just access to serve and haven't the possibility to transfer the HTML report from the server to see it in my own system.

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If you use WSL you can still open the html reports. WSL was a great addition to windows.

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check if you have java installed https://www.java.com/

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yes, java version 8 was installed.

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