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Add compose file for normalizer services#32

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theferrit32 merged 1 commit intomainfrom
kf/add-normalizer-compose
Feb 3, 2026
Merged

Add compose file for normalizer services#32
theferrit32 merged 1 commit intomainfrom
kf/add-normalizer-compose

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We are using the vicc variation normalizer to perform expression translations to VRS. For the most part this is just a passthrough to vrs-python except for HGVS ambiguous ranges. Since hgvs at least in pre-release now supports those we should add support for that to vrs-python as soon as possible.

For now we'll keep using this.

Based on this values in this compose the following env vars need to be overriden like this:

# path specific to the machine
export SEQREPO_ROOT_DIR=/Users/kferrite/dev/data/seqrepo/2024-12-20
export SEQREPO_DATAPROXY_URL=seqrepo+file://${SEQREPO_ROOT_DIR}

# ports from variation-normalization/compose.yaml
export UTA_DB_URL=postgresql://anonymous:anonymous@localhost:5434/uta/uta_20241220
export GENE_NORM_DB_URL=http://localhost:8000

@theferrit32 theferrit32 self-assigned this Jan 22, 2026
@theferrit32 theferrit32 merged commit 52c346d into main Feb 3, 2026
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