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

Fix problem with int size during KGX merge step #409

Closed justaddcoffee closed 3 years ago

justaddcoffee commented 3 years ago

Trying to fix this error during merge in Jenkins (see this stackoverflow ticket)

16:48:31  Traceback (most recent call last):
16:48:31    File "run.py", line 166, in <module>
16:48:31      cli()
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/click/core.py", line 1137, in __call__
16:48:31      return self.main(*args, **kwargs)
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/click/core.py", line 1062, in main
16:48:31      rv = self.invoke(ctx)
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/click/core.py", line 1668, in invoke
16:48:31      return _process_result(sub_ctx.command.invoke(sub_ctx))
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/click/core.py", line 1404, in invoke
16:48:31      return ctx.invoke(self.callback, **ctx.params)
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/click/core.py", line 763, in invoke
16:48:31      return __callback(*args, **kwargs)
16:48:31    File "run.py", line 84, in merge
16:48:31      load_and_merge(yaml, processes)
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/kg_covid_19/merge_utils/merge_kg.py", line 33, in load_and_merge
16:48:31      merged_graph = merge(yaml_file, processes=processes)
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/kgx/cli/cli_utils.py", line 486, in merge
16:48:31      stores = [r.get() for r in results]
16:48:31    File "/var/lib/jenkins/workspace/dge-graph-hub_kg-covid-19_master/gitrepo/venv/lib/python3.7/site-packages/kgx/cli/cli_utils.py", line 486, in <listcomp>
16:48:31      stores = [r.get() for r in results]
16:48:31    File "/usr/lib/python3.7/multiprocessing/pool.py", line 657, in get
16:48:31      raise self._value
16:48:31  multiprocessing.pool.MaybeEncodingError: Error sending result: '<kgx.source.graph_source.GraphSource object at 0x7f2acfe59c50>'. Reason: 'error("'i' format requires -2147483648 <= number <= 2147483647")'
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

No Coverage information No Coverage information
No Duplication information No Duplication information

justaddcoffee commented 3 years ago

Close so I can rename a broken Jenkins pipeline - problem with Jenkin not being able to clean workspace