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update needed for fetching the right BridgeDb Derby files #47

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egonw opened this issue Aug 8, 2023 · 0 comments
Open

update needed for fetching the right BridgeDb Derby files #47

egonw opened this issue Aug 8, 2023 · 0 comments
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@egonw
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egonw commented Aug 8, 2023

The current code is, correctly, using the JSON files: https://github.com/wikipathways/wikipathways-database/blob/main/scripts/meta-data-action/configGenerator.sh

But the following lines need updating: https://github.com/wikipathways/wikipathways-database/blob/main/scripts/meta-data-action/configGenerator.sh#L15-L19

Basically, we should download only those files that have been tested with a certain tool. For some entries the JSON already had a tested field, indicating if they work with PathVisio 3.3 (PV33).

For the Docker building (and thus the webservice, WS in the JSON) I found that adding this to the jq step makes it do what I want: | select(.tested) | select(.tested|.[]|test(.|"WS"))

But I think I need your help because I am not entirely sure what the above code is expected to do, @AlexanderPico.

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