Jsonschema >4.18.6 incompatibility

[alxsimon]

I've stumbled on what seems to be a version incompatibility with jsonschema.

Got this error trying to import pyslim in an environment but it seems the import issue is originally in tskit.
This issue seems to be from this change in jsonschema https://github.com/python-jsonschema/jsonschema/blob/main/CHANGELOG.rst#v4190, so reverting to v4.18.6 works.

>>> import pyslim
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/pyslim/__init__.py", line 4, in <module>
    from pyslim.slim_metadata import *       # NOQA
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/pyslim/slim_metadata.py", line 438, in <module>
    slim_metadata_schemas = {k: tskit.MetadataSchema(_raw_slim_metadata_schemas[k]) for k in _raw_slim_
metadata_schemas}
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/pyslim/slim_metadata.py", line 438, in <dictcomp>
    slim_metadata_schemas = {k: tskit.MetadataSchema(_raw_slim_metadata_schemas[k]) for k in _raw_slim_
metadata_schemas}
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/tskit/metadata.py", line 639, in __init__
    codec_instance = codec_cls(schema)
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/tskit/metadata.py", line 580, in __init__
    StructCodecSchemaValidator.check_schema(schema)
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/jsonschema/validators.py", line 301, in check_schema
    for error in validator.iter_errors(schema):
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/jsonschema/validators.py", line 368, in iter_errors
    for error in errors:
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/tskit/metadata.py", line 196, in binary_format_validator
    yield from jsonschema._validators.type(validator, types, instance, schema)
  File "/home/acpsimon/admixcov_sims/.snakemake/conda/046359eddbbe74905c024f6d72f2fc3c_/lib/python3.10/
site-packages/jsonschema/__init__.py", line 105, in __getattr__
    raise AttributeError(f"module {__name__} has no attribute {name}")
AttributeError: module jsonschema has no attribute _validators. Did you mean: 'validators'?

[benjeffery]

tskit 0.5.6 is now released which is compatible with both jsonschema versions.