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Improve VRS 2 output#15

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sallybg merged 4 commits intodevfrom
improve-vrs-2-output
Aug 14, 2024
Merged

Improve VRS 2 output#15
sallybg merged 4 commits intodevfrom
improve-vrs-2-output

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@sallybg sallybg commented Aug 1, 2024

Provide expanded VRS 2 output which includes detailed location information.
Instead of providing a CLI option to include VRS 2 output in addition to VRS 1.3,
provide a CLI option to include either VRS 1.3 or VRS 2 output.
Make VRS 2 the default output.

Workaround for issue where model_dump_json picks an IRI rather
than a SequenceLocation to represent an Allele or Haplotype's
location.
@sallybg sallybg mentioned this pull request Aug 7, 2024
@sallybg sallybg requested review from bencap and jstone-dev August 7, 2024 22:20
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Lgtm, thanks Sally.

Comment thread src/dcd_mapping/annotate.py Outdated
post_mapped_2_0=post_mapped,
pre_mapped=pre_mapped,
post_mapped=post_mapped,
vrs_version=vrs_version, # TODO figure out how inserting an enum value works
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Can remove comment

@sallybg sallybg force-pushed the improve-vrs-2-output branch from 6a499fc to 8b2b75e Compare August 14, 2024 18:32
@sallybg sallybg merged commit 8c734b5 into dev Aug 14, 2024
@sallybg sallybg deleted the improve-vrs-2-output branch August 14, 2024 18:35
@bencap bencap linked an issue Aug 19, 2024 that may be closed by this pull request
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Improve VRS 2.0 Output

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