From f9622c61b1daebef14bc46349a1c9815d9a8e89f Mon Sep 17 00:00:00 2001 From: Dzmitry Hramyka Date: Mon, 4 Sep 2023 13:48:14 +0200 Subject: [PATCH] feat: add clinvar info to readme (#1) --- README.md | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) diff --git a/README.md b/README.md index d9a4ad0..55ffa1e 100644 --- a/README.md +++ b/README.md @@ -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`.