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At the moment we've only retrieved data from LIMS and have been hardcoding CN and PL to the values "MSKCC" and "Illumina", respectively, in the operators. Since we are going to begin importing data from non-MSKCC sources, we need to generalize those fields.
We must add "sequencingCenter" (which maps to CN) and "platform" (maps to PL) to the metadata. IGOLIMS data will always have "sequencingCenter" set to "MSKCC" and "platform" set to "Illumina", so we may need to make a migration to update existing files.
The text was updated successfully, but these errors were encountered:
https://github.com/mskcc/beagle/blob/develop/runner/operator/roslin_operator/bin/make_sample.py#L80-L81
At the moment we've only retrieved data from LIMS and have been hardcoding
CN
andPL
to the values "MSKCC" and "Illumina", respectively, in the operators. Since we are going to begin importing data from non-MSKCC sources, we need to generalize those fields.We must add "sequencingCenter" (which maps to CN) and "platform" (maps to PL) to the metadata. IGOLIMS data will always have "sequencingCenter" set to "MSKCC" and "platform" set to "Illumina", so we may need to make a migration to update existing files.
The text was updated successfully, but these errors were encountered: