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bioinfo-chru-strasbourg / howard

Highly Open Workflow for Annotation & Ranking toward genomic variant Discovery
GNU Affero General Public License v3.0
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Annotation file not found #266

Closed JbaptisteLam closed 3 days ago

JbaptisteLam commented 3 weeks ago

""" raise ValueError("Annotation failed: file not found") ValueError: Annotation failed: file not found """

Howard raise a "file not found error" whereas the parquet file is clearly there, It looks like the ".hdr" file containing header informations is missing. Adding a different message regarding the real missing file could be a plus,

Best

antonylebechec commented 3 days ago

Fix includes a new error message to better identify that header is missing:

ValueError: Annotation failed: Annotation file '/tmp/avsnp150.parquet' header not found. Check for file '/tmp/avsnp150.parquet.hdr'

Fix also do not allow missing annotation file in quick annotation:

ValueError: Quick Annotation File /tmp/avsnp150.parquett does NOT exist