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Knowledge-Graph-Hub / kg-covid-19

An instance of KG Hub to produce a knowledge graph for COVID-19 response.
https://github.com/Knowledge-Graph-Hub/kg-covid-19/wiki
BSD 3-Clause "New" or "Revised" License
78 stars 26 forks source link

Update kgx to v1.1.0 #380

Closed justaddcoffee closed 3 years ago

justaddcoffee commented 3 years ago

@kltm could you have a look at this error? Seems like the pipeline isn't working right python3.8

justaddcoffee commented 3 years ago

@deepakunni3 could you ping me when you get a non-jupyter KGX 0.4 version ready, so I can test the pipeline?

sonarcloud[bot] commented 3 years ago

Kudos, SonarCloud Quality Gate passed!

Bug A 0 Bugs
Vulnerability A 0 Vulnerabilities
Security Hotspot A 0 Security Hotspots
Code Smell A 0 Code Smells

100.0% 100.0% Coverage
0.0% 0.0% Duplication

justaddcoffee commented 3 years ago

Closer:

Currently stuck on this error

18:18:25      return _process_class(cls, init, repr, eq, order, unsafe_hash, frozen)
18:18:25    File "/usr/lib/python3.8/dataclasses.py", line 909, in _process_class
18:18:25      _init_fn(flds,
18:18:25  TypeError: dataclasses_init_fn_with_kwargs() missing 1 required positional argument: 'globals'

Evidently related to biolinkml, @deepakunni3 is working on a fix

justaddcoffee commented 3 years ago

this is stale, switching to #405 as the best fix for this has likely changed

justaddcoffee commented 3 years ago

On second thought, let's go with this one

sonarcloud[bot] commented 3 years ago

Kudos, SonarCloud Quality Gate passed!

Bug A 0 Bugs
Vulnerability A 0 Vulnerabilities
Security Hotspot A 0 Security Hotspots
Code Smell A 0 Code Smells

85.2% 85.2% Coverage
0.0% 0.0% Duplication