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Issue with new created datasource #376

Open amomin-pact opened 5 years ago

amomin-pact commented 5 years ago

Hi , I created a new data source for the new Cosmic v90 for the cancercensusgene's and the comic variants. However when I try to run the variant annotation using the new data source I get the following error regarding a missing column. I am not sure which column is missing that results in his error.

Can some one point me if a specific datasource is essential for making the datasource. I dont get this warning when using the datasource downloaded from the broad.

Thanks Amin

2019-10-25 14:14:14,609 INFO [oncotator.DatasourceFactory:307] Pool created
2019-10-25 14:14:14,633 WARNING [oncotator.DatasourceFactory:124]  is missing from column name list.

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 2019-10-25 14:14:16,456 WARNING [root:97] Index field (gene) not found.  Remember that datasources must be ordered.  Please put a datasource that provides the 'gene' annotation in front of this datasource, such as any TranscriptProvider.
2019-10-25 14:14:16,456 WARNING [root:84] Index field (transcript_id) not found.  Remember that datasources must be ordered.  Please put a datasource that provides the 'transcript_id' annotation in front of this datasource, such as any TranscriptProvider.
2019-10-25 14:14:16,468 WARNING [root:97] Index field (gene) not found.  Remember that datasources must be ordered.  Please put a datasource that provides the 'gene' annotation in front of this datasource, such as any TranscriptProvider.
2019-10-25 14:14:16,468 WARNING [root:84] Index field (transcript_id) not found.  Remember that datasources must be ordered.  Please put a datasource that provides the 'transcript_id' annotation in front of this datasource, such as any TranscriptProvider.