Kyle Ferriter comments

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                                            Kyle Ferriter

Fix variant region for ins and dup on intron-exon boundary

@andreasprlic try now

compose docs and volume mount examples

@jsstevenson lets merge 532 first and we can synergize the markdown here afterwards

compose docs and volume mount examples

I'll do a pass through these and make sure it is consistent with changes merged from the hackathon

`seqrepo pull` expects existing `seqrepo` dir

I am supportive of changing the default database dir from `/usr/local/seqrepo` to something like `~/.local/seqrepo`. And having it check and log if the SEQREPO_ROOT_DIR (either the default or a configured...

Error translating allele `to_spdi`

@ottojolanki Closing this now as it should be fixed in [`2.1.1`](https://pypi.org/project/ga4gh.vrs/2.1.1/), please re-open or open another issue if you encounter issues.

Make vrs-python usable for genomic variant normalization without installing postgresql dependencies

Related https://github.com/broadinstitute/seqr-loading-pipelines/issues/1089

Make vrs-python usable for genomic variant normalization without installing postgresql dependencies

Also a good reminder that the `gnomad` python library is still pinned to `0.8.4` https://github.com/broadinstitute/gnomad_methods/blob/v0.8.2/requirements.txt#L2

Make vrs-python usable for genomic variant normalization without installing postgresql dependencies

This may be difficult since hgvs requires a postgres library and we need hgvs parsing even for genomic variants. It is possible but unlikely for the `hgvs` package to make...

Same-as-reference Alleles should have a ReferenceLengthExpression state

I think this condition may also be just a defensive gate for the ref==alt case, but I could be wrong. If we return an RLE Allele from the prior ValueError...

Same-as-reference Alleles should have a ReferenceLengthExpression state

@melissacline great to hear that this will be useful. The one I was testing with earlier was just something I picked and made up randomly. Would it be possible for...