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Docker image is not compatible with gitpod #11

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erinyoung opened this issue Jul 10, 2023 · 0 comments
Open

Docker image is not compatible with gitpod #11

erinyoung opened this issue Jul 10, 2023 · 0 comments

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@erinyoung
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Describe the bug
There's a chown error in the Docker image that probably only impacts those using gitpod.

Impact
It makes me sad.

To Reproduce
Steps to reproduce the behavior:

  1. Go to gitpod and set up a working environment
  2. Run docker pull ghcr.io/cdcgov/varpipe_wgs_with_refs:latest
  3. See error

Expected behavior
I was hoping to pull and run the container.

Screenshots
Logs

$ docker pull ghcr.io/cdcgov/varpipe_wgs_with_refs:latest
latest: Pulling from cdcgov/varpipe_wgs_with_refs
675920708c8b: Pull complete 
369f07e1bfcc: Pull complete 
396ca6e8bff5: Extracting [==================================================>]  1.493GB/1.493GB
fdbf54dfdd92: Download complete 
d33475f0e2a1: Download complete 
1cb02021a3bb: Download complete 
a7949e93dce0: Download complete 
71e0629fd528: Download complete 
a8ab3ebdb29c: Download complete 
239eb7efc411: Download complete 
25d56755ff10: Download complete 
d1135ae50cb4: Download complete 
failed to register layer: ApplyLayer exit status 1 stdout:  stderr: failed to Lchown "/bioinf-tools/minimap2-2.24" for UID 54818, GID 1048853 (try increasing the number of subordinate IDs in /etc/subuid and /etc/subgid): lchown /bioinf-tools/minimap2-2.24: invalid argument

Desktop (please complete the following information):

  • gitpod

Additional context
Add any other context about the problem here.

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