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Using ELLA track config manager

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    Using ELLA track config manager Using ELLA track config manager
    Table of contents
    
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    Track config manager instructions
    
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HTS Bioinf - Using ELLA track config manager

Scope

The procedure describes how to update igvjs tracks in ELLA visual using ELLA track config manager.

Responsibility

Production duty bioinformaticians.

Administration

ELLA track config manager webUI is run on the VM p22-app-01.

If it is not up, navigate to /ess/p22/data/durable/production/ella/ops-compose as service user from p22-app-01 and run task track-config-manager from within a screen.

The configuration of the tool can be found at /ess/p22/data/durable/production/ella/ops-compose/ella_trackcfg_mgr/config.txt.

Track config manager instructions

Navigate to p22-app-01:8585 in a browser on TSD (e.g. Chromium)
Select an instance (staging or prod)
Click the Edit Config button on the top right of the view and choose Code in View (Figure 1 left panel)
Find the track in question (scroll or use CTRL+f) and update its version in the description field
Tick Write updated config and click the button to save the new config
Review the changes on the front page for the respective instance of the track config manager (Figure 1 right panel)

Figure 1. Screenshots of ELLA track config manager webUI.

Info

How to check that the Track config update worked as expected: navigate to respective ELLA instance, any sample, tab "VISUAL" (left panel, on top of variants table), in TRACK SELECTION hover over respective data source (for example, "Clinvar" in SNV section) - it should show the annotation and file version that you entered earlier in Track config.