not compatible with venv ?

[scenaristeur]

HI , i 've just installed kglab, but it does not seem to work in venv https://docs.python.org/3/library/venv.html, right ?

I'm submitting a

• bug report.
• feature request.

Current Behaviour:

in venv environnement, i got an issue importing _sqlite3 using this code found at https://derwen.ai/docs/kgl/start/#sample-usage

import kglab

kg = kglab.KnowledgeGraph()
kg.load_rdf("https://storage.googleapis.com/kglab-tutorial/foaf.rdf", format="xml")

measure = kglab.Measure()
measure.measure_graph(kg)

print("edges: {}\n".format(measure.get_edge_count()))
print("nodes: {}\n".format(measure.get_node_count()))

ttl = kg.save_rdf_text()
print(ttl)

(pyg_test) smag@smag-IdeaPad:~/dev/gnn/pyg_test/kgl_rdf$ python load_rdf.py 
Traceback (most recent call last):
  File "/home/smag/dev/gnn/pyg_test/kgl_rdf/load_rdf.py", line 1, in <module>
    import kglab
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/kglab/__init__.py", line 4, in <module>
    from .kglab import KnowledgeGraph
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/kglab/kglab.py", line 23, in <module>
    from .query.sparql import SparqlQueryable
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/kglab/query/sparql.py", line 13, in <module>
    import pyvis  # type: ignore  # pylint: disable=E0401
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/pyvis/__init__.py", line 1, in <module>
    from . import network
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/pyvis/network.py", line 10, in <module>
    from IPython.display import IFrame
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/IPython/__init__.py", line 54, in <module>
    from .terminal.embed import embed
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/IPython/terminal/embed.py", line 15, in <module>
    from IPython.core.interactiveshell import DummyMod, InteractiveShell
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 73, in <module>
    from IPython.core.history import HistoryManager
  File "/home/smag/dev/gnn/pyg_test/lib/python3.10/site-packages/IPython/core/history.py", line 11, in <module>
    import sqlite3
  File "/usr/local/lib/python3.10/sqlite3/__init__.py", line 57, in <module>
    from sqlite3.dbapi2 import *
  File "/usr/local/lib/python3.10/sqlite3/dbapi2.py", line 27, in <module>
    from _sqlite3 import *
ModuleNotFoundError: No module named '_sqlite3'

but it seems to work outside venv see below : top = inside venv, down = outside venv

Expected Behaviour:

Steps to reproduce:

Snapshot:

Environment:

• python version 3.10.6
• pip version : see picture
• OS details : Linux Mint

[ceteri]

Hi @scenaristeur,

Thank you for the report. We don't use sqlite3 as a dependency in the kglab library, so I'm trying to figure out how that has come into the mix.

Currently, I'm running on macOS with Py 3.8.10 and that script produces:
ptr_sample.txt

It appears from the stack trace that IPython requires sqlite3, although that's not being referenced in the sample.py code. The use of IPython is only when pyvis gets used to visualize a graph, as far as I can tell.

Anecdotally, I've seen many issues reported in the transition to the 3.9 and 3.10 releases of Python which seem to be causing turmoil for a number packages, and perhaps now ours too?

I'll keep digging into this!