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feat: add clinvar info to readme (#1)
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gromdimon authored Sep 4, 2023
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Expand Up @@ -260,6 +260,24 @@ reev-server-worker db to-bin \
--path-output-bin .dev/volumes/reev-static/data/worker/grch37/strucvars/inhouse.bin
```
To obtain ClinVar
```bash session
wget -O /tmp/clinvar-annonars-rocksdb-grch37-20230826+0.6.3+0.12.9.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/clinvar-weekly-20230826/clinvar-annonars-rocksdb-grch37-20230826+0.6.3+0.12.9.tar.gz
wget -O /tmp/clinvar-annonars-rocksdb-grch38-20230826+0.6.3+0.12.9.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/clinvar-weekly-20230826/clinvar-annonars-rocksdb-grch38-20230826+0.6.3+0.12.9.tar.gz

tar -C .dev/volumes/reev-static/data/download/annonars/ \
-xf /tmp/clinvar-annonars-rocksdb-grch37-20230826+0.6.3+0.12.9.tar.gz
tar -C .dev/volumes/reev-static/data/download/annonars \
-xf /tmp/clinvar-annonars-rocksdb-grch38-20230826+0.6.3+0.12.9.tar.gz

ln -sr .dev/volumes/reev-static/data/download/annonars/clinvar-annonars-rocksdb-grch37-20230826+0.6.3+0.12.9 \
.dev/volumes/varfish-static/data/annonars/grch37/clinvar
ln -sr .dev/volumes/reev-static/data/download/annonars/clinvar-annonars-rocksdb-grch37-20230826+0.6.3+0.12.9 \
.dev/volumes/varfish-static/data/annonars/grch38/clinvar
```
### Setup Configuration
The next step step is to create the configuration files in `.dev/config`.
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