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Networkx 3 compatibility #1447

Merged
merged 6 commits into from
Jun 8, 2024
Merged

Networkx 3 compatibility #1447

merged 6 commits into from
Jun 8, 2024

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kkaris
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@kkaris kkaris commented Jun 7, 2024

I've done with a deeper investigation of upgrading to networkx3. For the downstream repositories listed below I checked any usage of networkx and cross checked any function calls with the full repository diff between 2.0.0 and 3.3 to see if any update might be needed, tested the code in some cases where it wasn't clear if the update would disrupt its implementation and ran the tests for the repository with networkx 3.3 installed.

Investigated repositories:

  • trialsynth
  • indra_network_search
  • indra_world
  • indra_reading
  • protmapper
  • emmaa
  • indra_db
  • indra_cogex

No issues related to removing the networkx<3 constraint were found in the investigation.

Resolves #1442 and #1445.

@kkaris kkaris merged commit b3e9023 into master Jun 8, 2024
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@bgyori bgyori deleted the networkx_dep branch July 23, 2024 20:24
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