java.lang.NullPointerException

Google Groups | Daofeng Li | 10 months ago
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    run Juicebox dump through Apache

    Google Groups | 10 months ago | Daofeng Li
    java.lang.NullPointerException

    Root Cause Analysis

    1. java.lang.NullPointerException

      No message provided

      at org.broad.igv.DirectoryManager.getIgvDirectory()
    2. org.broad.igv
      IGVSeekableStreamFactory.getStreamFor
      1. org.broad.igv.DirectoryManager.getIgvDirectory(DirectoryManager.java:121)
      2. org.broad.igv.DirectoryManager.getPreferencesFile(DirectoryManager.java:250)
      3. org.broad.igv.IGVPreferences.loadUserPreferences(IGVPreferences.java:113)
      4. org.broad.igv.IGVPreferences.get(IGVPreferences.java:93)
      5. org.broad.igv.IGVPreferences.get(IGVPreferences.java:86)
      6. org.broad.igv.PreferenceManager.get(PreferenceManager.java:285)
      7. org.broad.igv.PreferenceManager.get(PreferenceManager.java:289)
      8. org.broad.igv.gs.GSUtils.getDMHost(GSUtils.java:201)
      9. org.broad.igv.gs.GSUtils.isGenomeSpace(GSUtils.java:194)
      10. org.broad.igv.util.HttpUtils.openConnection(HttpUtils.java:649)
      11. org.broad.igv.util.HttpUtils.openConnection(HttpUtils.java:591)
      12. org.broad.igv.util.HttpUtils.openConnectionHeadOrGet(HttpUtils.java:243)
      13. org.broad.igv.util.HttpUtils.getHeaderField(HttpUtils.java:258)
      14. org.broad.igv.util.HttpUtils.getContentLength(HttpUtils.java:272)
      15. org.broad.igv.util.HttpUtils.useByteRange(HttpUtils.java:775)
      16. org.broad.igv.util.stream.IGVSeekableStreamFactory.getStreamFor(IGVSeekableStreamFactory.java:52)
      16 frames
    3. juicebox.data
      HiCFileTools.extractDatasetForCLT
      1. juicebox.data.DatasetReaderV2.<init>(DatasetReaderV2.java:77)
      2. juicebox.data.HiCFileTools.extractDatasetForCLT(HiCFileTools.java:63)
      2 frames
    4. juicebox.tools.clt
      Dump.readArguments
      1. juicebox.tools.clt.old.Dump.readArguments(Dump.java:395)
      1 frame
    5. juicebox.tools
      HiCTools.main
      1. juicebox.tools.HiCTools.main(HiCTools.java:77)
      1 frame