服务器上安装运行fastqc

conda install fastqc

运行出错:

Exception in thread "main" java.awt.HeadlessException:

No X11 DISPLAY variable was set, but this program performed an operation which requires it.

at java.awt.GraphicsEnvironment.checkHeadless(GraphicsEnvironment.java:204)

at java.awt.Window.(Window.java:536)

at java.awt.frame.(frame.java:420)

at java.awt.frame.(frame.java:385)

at javax.swing.Jframe.(Jframe.java:189)

at uk.ac.babraham.FastQC.FastQCApplication.(FastQCApplication.java:63)

at uk.ac.babraham.FastQC.FastQCApplication.main(FastQCApplication.java:338)

以为是java版本不多，折腾了很久...

出错原因：fastqc 自动调用浏览器输出质控结果，而服务器都是远程终端登录，不能运行图形界面。fastqc本地电脑安装运行都没有问题。

fastqc -t ${threads} -o ${results_dir} 
	 ${read1} 
	 ${read2} 
     ${results_dir}/${sn}.${sample}.1.clean.fq.gz 
     ${results_dir}/${sn}.${sample}.2.clean.fq.gz