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  • sean-mccorkle
    Junior Member
    • Mar 2020
    • 2

    Question: Need to create a small artificial SRA file for unit testing

    Hi folks. I'm looking for a way to create an SRA file from an artificial fastq file for the purpose of unit testing a SRA file loader. The resultant SRA file should be small in order to minimize automatic testing time. (ie the fastq fill has only 10 reads).

    The closest thing I've found are latf-load and fastq-loader.py in the NCBI toolkits, which generate sub-directory structures with various pieces of information. Is there any way to go from that to an SRA file (keeping it local to the machine)

    (I've also posted this at biostars - hope thats not breaking any rules here. I'm a new user)
  • SylvainL
    Senior Member
    • Feb 2012
    • 180

    #2
    See this post...

    Hello, I have a problem with the conversion of fastq file to sra. Only available tool I found is called fastq-load from sra toolkit but I dont get the usage from very brief help which represents whole documentation. I manage to create run.xml and experiment.xml files but I am also a little bit confused which version of

    Comment

    • sean-mccorkle
      Junior Member
      • Mar 2020
      • 2

      #3
      Yes! "kar" was the program I was missing! It works perfectly!

      I cannot thank you enough for this!

      Comment

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