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Codeql action upgrade

backups requested to merge github/fork/chenejac/codeQLActionUpgrade into main

Created by: chenejac

VIVO GitHub issue: 3902

What does this pull request do?

Upgrading the codeql-action version (v1 is deprecated, it is upgraded to v2)

What's new?

codeql-analysis.yml files is slightly changed

How should this be tested?

https://github.com/vivo-project/VIVO/actions/runs/5690776782 there shouldn't be errors present in the previous running of codeql action, such as https://github.com/vivo-project/VIVO/actions/runs/5630429939

Interested parties

Tag (@ mention) interested parties or, if unsure, @VIVO-project/vivo-committers

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