problem with docker image for Copy Number Alterations tutorial

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Tatyana Zhuravleva

• September 21, 2020 20:49

Moving this topic here from GitHub, as requested by droazen (https://github.com/broadinstitute/gatk/issues/6836#issuecomment-696282962)

Basically, I would like to use the docker image mentioned in (How to part I): Sensitively detect copy ratio alterations and allelic segments, but it appears that the image is no longer there.

If you are seeing an error, please provide(REQUIRED) :
a) GATK version used:

NA; trying to use Docker 

b) Exact command used:

docker pull spacecade7/tutorial_11682_11683

 
c) Entire error log:

Using default tag: latest

Error response from daemon: manifest for spacecade7/tutorial_11682_11683:latest not found: manifest unknown: manifest unknown

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• 

  Genevieve Brandt (she/her)

  • September 25, 2020 18:35

  Hello Tatyana Zhuravleva, it looks like docker is trying to use the tag "latest" when you do not specify a tag, which is nonexistent for that docker image.

  The correct way to get the docker image is:

  docker pull spacecade7/tutorial_11682_11683:gatk4.0.1.1

  Thanks for bringing this to our attention, I will also reach out to our documentation team to make the tutorial more clear. 

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  Tatyana Zhuravleva

  • October 01, 2020 05:47

  Thank you, the clarified way works! 

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