Error when conversion region wasn't studied

[rhdolin]

Prerequisites

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• [x ] I am running the latest version
• [x ] I checked the documentation and found no answer
• [x ] I checked to make sure that this issue has not already been filed

Context

Please provide any relevant information about your setup. This is important in case the issue is not reproducible except for under certain conditions.

Test case is based on a targeted genome study. (vcf_filename='HG00403A.vcf.gz', has_tabix='True', ref_build='GRCh37', conv_region_filename='HG00403A_convert.bed', region_studied_filename='HG00403A_studied.bed') (files are on google drive in vcf2fhir/test_cases folder)

Expected Behavior

When the requested conversion region hasn't been studied, we are generating a non-conformant diagnostic report. We should decide what we want in this situation - for instance, we probably want to include a regionStudied observation that somehow indicates that the intersection of convert and studied is null.

[rhdolin]

Suggested resolution - where intersection is null, include a region-studied observation, where ranges-examined's dataAbsentReason is set to 'not-performed'