Merge pull request #1095 from dandi/bids_transition

Use upstream bidsschematools for BIDS validation
dandi · Aug 26, 2022 · ef097cc · ef097cc
2 parents 99fa604 + 4bb376f
commit ef097cc
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Showing 96 changed files with 3 additions and 18,865 deletions.
diff --git a/dandi/cli/cmd_validate.py b/dandi/cli/cmd_validate.py
@@ -21,14 +21,12 @@
     help="Whether to write a report under a unique path in the DANDI log directory.",
 )
 @click.argument("paths", nargs=-1, type=click.Path(exists=True, dir_okay=True))
-@devel_debug_option()
 @map_to_click_exceptions
 def validate_bids(
     paths,
     schema,
     report,
     report_path,
-    devel_debug=False,
 ):
     """Validate BIDS paths.
 
@@ -46,7 +44,6 @@ def validate_bids(
         report=report,
         report_path=report_path,
         schema_version=schema,
-        devel_debug=devel_debug,
     )
     valid = is_valid(validator_result)
     report_errors(validator_result)

diff --git a/dandi/cli/tests/test_cmd_validate.py b/dandi/cli/tests/test_cmd_validate.py
@@ -7,7 +7,7 @@ def test_validate_bids_error(bids_examples):
     from ..cmd_validate import validate_bids
 
     expected_error = (
-        "Summary: 2 filename patterns required by BIDS could not be found "
+        "Summary: 1 filename pattern required by BIDS could not be found "
         "and 1 filename did not match any pattern known to BIDS.\n"
     )
     broken_dataset = os.path.join(bids_examples, "invalid_pet001")

diff --git a/dandi/support/bids/__init__.py b/dandi/support/bids/__init__.py
diff --git a/dandi/support/bids/schema.py b/dandi/support/bids/schema.py