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Fix .json path for hailctl start with vep GRCh38 #6632

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merged 3 commits into from Jul 14, 2019
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@@ -22,6 +22,8 @@ apt-get install -y --allow-unauthenticated docker-ce

# Get VEP cache and LOFTEE data
gsutil cp gs://hail-common/vep/vep/vep85-loftee-gcloud.json /vep_data/vep85-gcloud.json
ln -s /vep_data/vep85-gcloud.json /vep_data/vep-gcloud.json

gsutil -m cp -r gs://hail-common/vep/vep/loftee-beta/${ASSEMBLY}/* /vep_data/loftee_data/ &
gsutil -m cp -r gs://hail-common/vep/vep/Plugins /vep_data &
gsutil -m cp -r gs://hail-common/vep/vep/homo_sapiens/85_${ASSEMBLY} /vep_data/homo_sapiens/ &
@@ -21,7 +21,9 @@ apt-get update
apt-get install -y --allow-unauthenticated docker-ce

# Get VEP cache and LOFTEE data
gsutil cp gs://hail-common/vep/vep/vep85-loftee-gcloud.json /vep_data/vep85-gcloud.json
gsutil cp gs://hail-common/vep/vep/vep95-GRCh38-loftee-gcloud.json /vep_data/vep95-GRCh38-gcloud.json
ln -s /vep_data/vep95-GRCh38-gcloud.json /vep_data/vep-gcloud.json

gsutil -m cp -r gs://hail-common/vep/vep/loftee-beta/${ASSEMBLY}/* /vep_data/ &
gsutil -m cp -r gs://hail-common/vep/vep/Plugins /vep_data &
gsutil -m cp -r gs://hail-common/vep/vep/homo_sapiens/95_${ASSEMBLY} /vep_data/homo_sapiens/ &
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