Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • error in building annotation database by SnpEff

    Hello!
    I am building an annotation database according to the manual of SnpEff.
    I got the error warning as following:
    00:00:00 SnpEff version SnpEff 4.2 (build 2015-12-05), by Pablo Cingolani
    00:00:00 Command: 'build'
    00:00:00 Building database for 'IRGSP1'
    00:00:00 Reading configuration file 'snpEff.config'. Genome: 'IRGSP1'
    00:00:00 Reading config file: /.../snpEff/snpEff.config
    java.lang.RuntimeException: Property: 'IRGSP1.genome' not found
    at ca.mcgill.mcb.pcingola.interval.Genome.<init>(Genome.java:106)
    at ca.mcgill.mcb.pcingola.snpEffect.Config.readGenomeConfig(Config.java:619)
    at ca.mcgill.mcb.pcingola.snpEffect.Config.readConfig(Config.java:587)
    at ca.mcgill.mcb.pcingola.snpEffect.Config.init(Config.java:434)
    at ca.mcgill.mcb.pcingola.snpEffect.Config.<init>(Config.java:110)
    at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.loadConfig(SnpEff.java:273)
    at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEffCmdBuild.run(SnpEffCmdBuild.java:340)
    at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.run(SnpEff.java:978)
    at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.main(SnpEff.java:136)
    00:00:00 Logging
    Does someone know how to fix it?
    Thank you very much

  • #2
    Hi loyaltman,
    I encountered the same exact error this week actually. It looked like a bug within the new update to me. I switched to a previous version (4.1g (build 2015-05-17). It worked like a charm! So, I would just try downloading this version and see if it works for you.
    Cheers!

    Comment


    • #3
      hello, burgerjohnjohn.
      Thank you very much, I will try.

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Recent Advances in Sequencing Analysis Tools
        by seqadmin


        The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
        05-06-2024, 07:48 AM
      • seqadmin
        Essential Discoveries and Tools in Epitranscriptomics
        by seqadmin




        The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...
        04-22-2024, 07:01 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, 05-10-2024, 06:35 AM
      0 responses
      19 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 05-09-2024, 02:46 PM
      0 responses
      22 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 05-07-2024, 06:57 AM
      0 responses
      21 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 05-06-2024, 07:17 AM
      0 responses
      21 views
      0 likes
      Last Post seqadmin  
      Working...
      X