Entering edit mode
6.1 years ago
zhangwel
•
0
I had something wrong when runing the FastQC:
fastqc SRR1552444.fastq.clean -o cleanfastqc/
Started analysis of SRR1552444.fastq.clean
Approx 5% complete for SRR1552444.fastq.clean
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Approx 90% complete for SRR1552444.fastq.clean
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Analysis complete for SRR1552444.fastq.clean
Exception in thread "Thread-1" java.lang.InternalError: java.lang.reflect.InvocationTargetException
at java.desktop/sun.font.FontManagerFactory$1.run(FontManagerFactory.java:86)
at java.base/java.security.AccessController.doPrivileged(Native Method)
at java.desktop/sun.font.FontManagerFactory.getInstance(FontManagerFactory.java:74)
at java.desktop/sun.font.SunFontManager.getInstance(SunFontManager.java:247)
at java.desktop/sun.font.FontDesignMetrics.getMetrics(FontDesignMetrics.java:265)
at java.desktop/sun.java2d.SunGraphics2D.getFontMetrics(SunGraphics2D.java:856)
at uk.ac.babraham.FastQC.Graphs.QualityBoxPlot.paint(QualityBoxPlot.java:88)
at java.desktop/javax.swing.JComponent.print(JComponent.java:1220)
at uk.ac.babraham.FastQC.Modules.AbstractQCModule.writeDefaultImage(AbstractQCModule.java:68)
at uk.ac.babraham.FastQC.Modules.PerBaseQualityScores.makeReport(PerBaseQualityScores.java:199)
at uk.ac.babraham.FastQC.Report.HTMLReportArchive.<init>(HTMLReportArchive.java:131)
at uk.ac.babraham.FastQC.Analysis.OfflineRunner.analysisComplete(OfflineRunner.java:178)
at uk.ac.babraham.FastQC.Analysis.AnalysisRunner.run(AnalysisRunner.java:110)
at java.base/java.lang.Thread.run(Thread.java:834)
Caused by: java.lang.reflect.InvocationTargetException
at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:490)
at java.desktop/sun.font.FontManagerFactory$1.run(FontManagerFactory.java:84)
... 13 more
Caused by: java.lang.NullPointerException
at java.desktop/sun.awt.FontConfiguration.getVersion(FontConfiguration.java:1262)
at java.desktop/sun.awt.FontConfiguration.readFontConfigFile(FontConfiguration.java:225)
at java.desktop/sun.awt.FontConfiguration.init(FontConfiguration.java:107)
at java.desktop/sun.awt.X11FontManager.createFontConfiguration(X11FontManager.java:719)
at java.desktop/sun.font.SunFontManager$2.run(SunFontManager.java:367)
at java.base/java.security.AccessController.doPrivileged(Native Method)
at java.desktop/sun.font.SunFontManager.<init>(SunFontManager.java:312)
at java.desktop/sun.awt.FcFontManager.<init>(FcFontManager.java:35)
at java.desktop/sun.awt.X11FontManager.<init>(X11FontManager.java:56)
... 18 more
How can I fix this?
It works，thanks very much！
yep, just run the command below, it will be ok.