KBase Documentation
  • KBase Documentation
  • KBase Terms & Conditions
  • Getting Started
    • Signing Up and Signing In
      • Step-by-Step Signup Guide
      • Authentication Update
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    • Narrative Quick Start
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      • Access the Narrative Interface
      • Tour the Narrative Interface
      • Narrative Navigator
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      • Explore Data
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      • Browse KBase Analysis Tools
      • Analyze Data Using KBase Apps
      • Job Browser
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  • Manage Your Account
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  • Working with Data
    • Data Upload and Download Guide
      • Data Types
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        • Bulk Import Limitations
      • Assembly
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      • Flux Balance Analysis (FBA) Model
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  • Using Apps
    • Analysis Apps in KBase
      • Assembly & Annotation
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      • Data Matrices - Amplicon, Stats
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    • Apps in Beta
  • Running Common Workflows
    • Assembling & Annotating Microbial Genomes
      • FAQ: Assembly and Annotation
    • Comparative Genomics & Phylogenetic Analysis
      • FAQ: Comparative Genomics
    • Metagenomic & Community Analysis
      • FAQ: Metagenomics & Community Analysis
    • Transcriptomic Analysis
      • FAQ: RNA-seq Analysis
    • Constructing Metabolic Models
      • Constructing and Analyzing Metabolic Flux Models of Microbial Communities
      • FAQ: Metabolic Modeling
  • Community Developed Workflows and Tools
    • Functional Annotation
    • Functional and Taxonomic Profiling of MAGs
    • Taxonomy
    • Viral
    • Random Walk with Restart Toolkit
  • Troubleshooting
    • Problems with the User Interface
    • Help Board
    • How to Report Issues
    • Job Errors and Their Meanings
      • Common Job Errors
        • The Job Log
      • Import Job Errors
      • Assembly App Errors
      • Annotation App Errors
      • Functional Genomics App Errors
      • Modeling App Errors
  • Developing Apps
    • The KBase SDK
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    • KBase GitHub Repository
  • External Links
    • KBase Narrative Interface
    • KBase web site
    • KBase App Catalog
  • kbase.us
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On this page
  • Job Status tab
  • Job Browser
  • Helpful Points

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  1. Troubleshooting
  2. Job Errors and Their Meanings
  3. Common Job Errors

The Job Log

The Job Log contains run information from apps and other jobs, including important error information.

PreviousCommon Job ErrorsNextImport Job Errors

Last updated 4 years ago

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The Job Log can be found in two places: an app's Job Status tab and the Job Browser (in the sidebar Menu).

Job Status tab

The Job Log starts at the bottom with the error highlighted in pink. There may be useful information located just above the pink section.

Job Browser

Find the line with the job of interest and click on the icon for the piece of paper. This will open up the log, starting at the top.

In the Job Browser, jobs not associated to an app i.e., export, are included within the job list. The Job ID and worker node are easily located and the log can be scrolled through within the pop-out. Job Logs can be downloaded in CSV, TSV, JSON, and TEXT formats using the download (downward-facing arrow into tray) icon.

Helpful Points

  • If the output object is created but the job ends in an error, assume that the error didn’t affect the data. Errors sometimes occur in the cleanup and reporting at the end while not affecting the output data.

  • Jobs do not run more than 7 days. If the narrative and/or the Job Browser say that a job is still running after 7 days, assume that it is dead. Resubmitting may solve the problem, but it is possible the job might be too big for KBase.

  • Assemblers currently have an upper limit of between 180,263,840 paired reads and 240,351,788 reads depending on complexity. If the job has been run twice, exceeded the 7 day limit, and your data is in this size range, it may be too big for KBase at this time.

  • Bowtie appears to have an upper limit between 3.5E+10 and 4.0E+10 bases due to space limitations.

  • If asked for a job ID, it is a 24-digit hexadecimal number that looks similar to this: 5e1e3234e4b0fb2e6517240a. It is in the first line of the job log.

  • If asked for the node where the job ran, it is on the first line of the job log and looks similar to Running on chicagoawe163 or Running on uploadworker or Running on uploadworker-prod-dtn2

  • Any file uploaded from a Windows machine might have DOS-style carriage-return line files along with new-lines. This has been known to cause problems with importing FASTQ files and may affect other files as well.

Even if you find an explanation for your error in the , it is okay to with follow-up questions.

list of common errors
submit a Help Board ticket