From 304c5e352b50ff6f30383ec56873e1be30a2507b Mon Sep 17 00:00:00 2001 From: Manuel Holtgrewe Date: Thu, 2 Nov 2023 11:50:27 +0100 Subject: [PATCH] docs: updating ClinVar download instructions (#31) --- README.md | 31 +++++++++++++++++-------------- 1 file changed, 17 insertions(+), 14 deletions(-) diff --git a/README.md b/README.md index a1a165a..e566d1c 100644 --- a/README.md +++ b/README.md @@ -265,27 +265,30 @@ varfish-server-worker db to-bin \ To obtain ClinVar ```bash session -wget -O /tmp/annonars-clinvar-minimal-grch37-20230910+0.18.0.tar.gz \ - https://github.com/bihealth/annonars-data-clinvar/releases/download/clinvar-weekly-20230910/annonars-clinvar-minimal-grch37-20230910+0.18.0.tar.gz -wget -O /tmp/annonars-clinvar-minimal-grch38-20230910+0.18.0.tar.gz \ - https://github.com/bihealth/annonars-data-clinvar/releases/download/clinvar-weekly-20230910/annonars-clinvar-minimal-grch38-20230910+0.18.0.tar.gz +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 -tar --strip-components=2 -C .dev/volumes/varfish-static/data/download/annonars/ \ - -xf /tmp/annonars-clinvar-minimal-grch37-20230910+0.18.0.tar.gz -tar --strip-components=2 -C .dev/volumes/varfish-static/data/download/annonars \ - -xf /tmp/annonars-clinvar-minimal-grch38-20230910+0.18.0.tar.gz +tar -C .dev/volumes/varfish-static/data/download/annonars/ \ + -tf /tmp/annonars-clinvar-minimal-grch37-20231015+0.24.1.tar.gz +tar -C .dev/volumes/varfish-static/data/download/annonars \ + -xf /tmp/annonars-clinvar-minimal-grch38-20231015+0.24.1.tar.gz -ln -sr .dev/volumes/varfish-static/data/download/annonars/annonars-clinvar-minimal-grch37-20230910+0.18.0 \ +rm -f .dev/volumes/varfish-static/data/annonars/grch37/clinvar +ln -sr .dev/volumes/varfish-static/data/download/annonars/annonars-clinvar-minimal-grch37-20231015+0.24.1 \ .dev/volumes/varfish-static/data/annonars/grch37/clinvar -ln -sr .dev/volumes/varfish-static/data/download/annonars/annonars-clinvar-minimal-grch38-20230910+0.18.0 \ +rm -f .dev/volumes/varfish-static/data/annonars/grch38/clinvar +ln -sr .dev/volumes/varfish-static/data/download/annonars/annonars-clinvar-minimal-grch38-20231015+0.24.1 \ .dev/volumes/varfish-static/data/annonars/grch38/clinvar -wget -O /tmp/annonars-clinvar-genes-20230910+0.18.0.tar.gz \ - https://github.com/bihealth/annonars-data-clinvar/releases/download/clinvar-weekly-20230910/annonars-clinvar-genes-20230910+0.18.0.tar.gz +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 tar -C .dev/volumes/varfish-static/data/download/annonars \ - -xf /tmp/annonars-clinvar-genes-20230910+0.18.0.tar.gz + -xf /tmp/annonars-clinvar-genes-20231015+0.24.1.tar.gz -ln -sr .dev/volumes/varfish-static/data/download/annonars/annonars-clinvar-genes-20230910+0.18.0 \ +rm -f .dev/volumes/varfish-static/data/annonars/clinvar-genes +ln -sr .dev/volumes/varfish-static/data/download/annonars/annonars-clinvar-genes-20231015+0.24.1 \ .dev/volumes/varfish-static/data/annonars/clinvar-genes ```