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  1. Barna Package
  2. BARNA-166

Error loading default simulator error model

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Details

    • Bug
    • Status: Resolved
    • Major
    • Resolution: Fixed
    • Simulator 1.0 (API 1.01)
    • Simulator
    • None

    Description

      I tried to generate few sequences using following par file

      ## File locations
      REF_FILE_NAME    ./id2.gtf
      GEN_DIR         ./
      
      ## Library preparation
      # Expression
      NB_MOLECULES    100
      TSS_MEAN    50
      POLYA_SCALE     100
      POLYA_SHAPE     1.5
      
      # Fragmentation
      FRAG_SUBSTRATE    RNA
      FRAG_METHOD    UR
      FRAG_UR_ETA     350
      
      # Reverse Transcription
      RTRANSCRIPTION    NO
      RT_MOTIF    default
      
      # Amplification
      PCR_DISTRIBUTION default
      GC_MEAN      NaN
      PCR_PROBABILITY  0.05
      
      # Size Filtering
      FILTERING     NO
      
      ## Sequencing
      READ_NUMBER    150
      READ_LENGTH    76
      PAIRED_END    NO
      FASTA    YES
      ERR_FILE    76
      

      Command

       ./flux-simulator -t simulator -p c.par -s -x -l lib
      

      Error

      Flux-Simulator v1.0 (Flux Library: 1.10)
      
      [INFO] I am collecting information on the run.
      [ERROR] Unable to load error model : unable to read error model from file /projects/dep_koornneef/grp_jimenez/bin/flux-simulator-1.0/bin/76
      java.lang.RuntimeException: unable to read error model from file /projects/dep_koornneef/grp_jimenez/bin/flux-simulator-1.0/bin/76
          at barna.flux.simulator.Sequencer.loadErrors(Sequencer.java:168)
          at barna.flux.simulator.SimulationPipeline.call(SimulationPipeline.java:391)
          at barna.flux.simulator.SimulationPipeline.call(SimulationPipeline.java:53)
          at barna.commons.launcher.Flux.main(Flux.java:212)
      [ERROR] Unable to load error model : unable to read error model from file /projects/dep_koornneef/grp_jimenez/bin/flux-simulator-1.0/bin/76
      

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            thasso Thasso Griebel
            thasso Thasso Griebel
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            Dates

              Created:
              Updated:
              Resolved: