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chore: bump clinvar data in readme #25

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Nov 18, 2023
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chore: bump clinvar data in readme #25

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26 changes: 13 additions & 13 deletions README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -266,33 +266,33 @@ reev-server-worker db to-bin \
```

To obtain ClinVar, use the following.
Note that this will install the data from October 15, 2023 and you might want to [look here for the latest release](https://github.com/bihealth/annonars-data-clinvar/releases).
Note that this will install the data from November 12, 2023 and you might want to [look here for the latest release](https://github.com/bihealth/annonars-data-clinvar/releases).

```bash session
wget -O /tmp/annonars-clinvar-minimal-grch37-20231015+0.24.1.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/annonars-data-clinvar-20231015/annonars-clinvar-minimal-grch37-20231015+0.24.1.tar.gz
wget -O /tmp/annonars-clinvar-minimal-grch38-20231015+0.24.1.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/annonars-data-clinvar-20231015/annonars-clinvar-minimal-grch38-20231015+0.24.1.tar.gz
wget -O /tmp/annonars-clinvar-minimal-grch37-20231112+0.24.5.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/annonars-data-clinvar-20231112/annonars-clinvar-minimal-grch37-20231112+0.24.5.tar.gz
wget -O /tmp/annonars-clinvar-minimal-grch38-20231112+0.24.5.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/annonars-data-clinvar-20231112/annonars-clinvar-minimal-grch38-20231112+0.24.5.tar.gz

tar -C .dev/volumes/reev-static/data/download/annonars/ \
-xf /tmp/annonars-clinvar-minimal-grch37-20231015+0.24.1.tar.gz
-xf /tmp/annonars-clinvar-minimal-grch37-20231112+0.24.5.tar.gz
tar -C .dev/volumes/reev-static/data/download/annonars \
-xf /tmp/annonars-clinvar-minimal-grch38-20231015+0.24.1.tar.gz
-xf /tmp/annonars-clinvar-minimal-grch38-20231112+0.24.5.tar.gz

rm -f .dev/volumes/reev-static/data/annonars/grch37/clinvar
ln -sr .dev/volumes/reev-static/data/download/annonars/annonars-clinvar-minimal-grch37-20231015+0.24.1 \
ln -sr .dev/volumes/reev-static/data/download/annonars/annonars-clinvar-minimal-grch37-20231112+0.24.5 \
.dev/volumes/reev-static/data/annonars/grch37/clinvar
rm -f .dev/volumes/reev-static/data/annonars/grch38/clinvar
ln -sr .dev/volumes/reev-static/data/download/annonars/annonars-clinvar-minimal-grch38-20231015+0.24.1 \
ln -sr .dev/volumes/reev-static/data/download/annonars/annonars-clinvar-minimal-grch38-20231112+0.24.5 \
.dev/volumes/reev-static/data/annonars/grch38/clinvar

wget -O /tmp/annonars-clinvar-genes-20231015+0.24.1.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/annonars-data-clinvar-20231015/annonars-clinvar-genes-20231015+0.24.1.tar.gz
wget -O /tmp/annonars-clinvar-genes-20231112+0.24.5.tar.gz \
https://github.com/bihealth/annonars-data-clinvar/releases/download/annonars-data-clinvar-20231112/annonars-clinvar-genes-20231112+0.24.5.tar.gz
tar -C .dev/volumes/reev-static/data/download/annonars \
-xf /tmp/annonars-clinvar-genes-20231015+0.24.1.tar.gz
-xf /tmp/annonars-clinvar-genes-20231112+0.24.5.tar.gz

rm -f .dev/volumes/reev-static/data/annonars/clinvar-genes
ln -sr .dev/volumes/reev-static/data/download/annonars/annonars-clinvar-genes-20231015+0.24.1 \
ln -sr .dev/volumes/reev-static/data/download/annonars/annonars-clinvar-genes-20231112+0.24.5 \
.dev/volumes/reev-static/data/annonars/clinvar-genes
```

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