org.broad.igv.exceptions.DataLoadException: An error occurred while accessing: S:\Bioinformatics\analysis\lmw\hox_in_lamprey\pmg1.d2\aa_igv_session.xml<br>Fasta file has uneven line lengths in contig null

Google Groups | Malcolm Cook | 3 months ago
  1. 0

    BUG: using relative paths to indexed fasta file as genome fails to load correctly

    Google Groups | 3 months ago | Malcolm Cook
    org.broad.igv.exceptions.DataLoadException: An error occurred while accessing: S:\Bioinformatics\analysis\lmw\hox_in_lamprey\pmg1.d2\aa_igv_session.xml<br>Fasta file has uneven line lengths in contig null
  2. 0

    Loading BAM via URL, Index file not found

    GitHub | 2 years ago | olingerc
    org.broad.igv.exceptions.DataLoadException: Connect timed out
  3. 0

    vcf not loading vcf

    Google Groups | 5 years ago | Peio Ziarsolo
    org.broad.igv.exceptions.DataLoadException: <html>An error occurred while accessing: /home/jope/work_in/igv_bug/snvs_to_igv.vcf<br>null
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  5. 0

    Trouble with bwasw BAM files

    Google Groups | 5 years ago | Rod
    org.broad.igv.exceptions.DataLoadException: <html>An error occurred while accessing: Error: java.lang.IllegalArgumentException: Bad byte passed to charToCompressedBase: -92<br>
  6. 0

    GitHub comment 109#64799143

    GitHub | 2 years ago | jrobinso
    org.broad.igv.exceptions.DataLoadException: Connect timed out

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    Root Cause Analysis

    1. org.broad.igv.exceptions.DataLoadException

      An error occurred while accessing: S:\Bioinformatics\analysis\lmw\hox_in_lamprey\pmg1.d2\aa_igv_session.xml<br>Fasta file has uneven line lengths in contig null

      at org.broad.igv.feature.genome.FastaUtils.createIndexFile()
    2. org.broad.igv
      LongRunningTask.call
      1. org.broad.igv.feature.genome.FastaUtils.createIndexFile(FastaUtils.java:94)
      2. org.broad.igv.feature.genome.GenomeManager.loadFastaFile(GenomeManager.java:290)
      3. org.broad.igv.feature.genome.GenomeManager.loadGenome(GenomeManager.java:167)
      4. org.broad.igv.ui.IGV.loadGenome(IGV.java:699)
      5. org.broad.igv.ui.IGV.loadGenome(IGV.java:680)
      6. org.broad.igv.session.IGVSessionReader.processRootNode(IGVSessionReader.java:404)
      7. org.broad.igv.session.IGVSessionReader.loadSession(IGVSessionReader.java:324)
      8. org.broad.igv.ui.IGV.restoreSessionSynchronous(IGV.java:1484)
      9. org.broad.igv.ui.IGV$10.run(IGV.java:1453)
      10. org.broad.igv.util.LongRunningTask.call(LongRunningTask.java:72)
      10 frames
    3. Java RT
      Thread.run
      1. java.util.concurrent.FutureTask.run(Unknown Source)
      2. java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
      3. java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
      4. java.lang.Thread.run(Unknown Source)
      4 frames