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TUM-Core-Facility-Microbiome / IMNGS2-Core-docs

Public repository for IMNGS2-Core
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Freeze on log page #18

Closed MPourjam closed 1 month ago

MPourjam commented 2 months ago

Describe the bug After selection of files to run the log screen only shows "Waiting for logs" and at bottom it shows "Initializing IMNGS2-Core environment: Checking docker image tag"

Screenshots image

Pipeline Log Files None of files below got produced. 1) In the selected base directory, there should be a file named Pipeline_log.txt 2) In the selected base directory, there should be a file named IMNGS2Pipeline_args.yml

System

I am using version 0.0.1 with pipeline version of v0.3.0

zsewa commented 2 months ago

This might be connected to the user not being in the docker group. This shouldn't reoccur after implementing #296.

MPourjam commented 2 months ago

The problem was due to improper installation on docker. Make sure that the docker is properly installed and ready to be used.

In your terminal run docker run hello-world to make sure docker is working properly on Linux machines.

zsewa commented 1 month ago

Checking the docker connection is improved with PR https://github.com/TUM-Core-Facility-Microbiome/IMNGS2-Core/pull/305. When the application can not connect to the docker daemon like when the user was not added to the docker group should now display the help text on failed backend connections.