From cd04649135ebb7db920058a7015c524848312c8d Mon Sep 17 00:00:00 2001 From: Xiang Li Date: Wed, 21 Aug 2024 23:22:34 -0400 Subject: [PATCH] Test install xz-utils --- scripts/import_mongo.sh | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/scripts/import_mongo.sh b/scripts/import_mongo.sh index a26cb9b..22d753f 100755 --- a/scripts/import_mongo.sh +++ b/scripts/import_mongo.sh @@ -59,8 +59,10 @@ curl https://genome-nexus-static-data.s3.amazonaws.com/mutationassessor4_for_gen echo "Download completed." echo "Extracting Mutation assessor data" -apt-get update && apt-get install -y xz-utils -unxz -k ${DIR}/../data/common_input/mutationassessor4_for_genome_nexus.tsv.xz +apt update && apt install -y xz-utils +echo xz-utils version +xz --version +xz -k ${DIR}/../data/common_input/mutationassessor4_for_genome_nexus.tsv.xz echo "Transforming Mutation assessor data" sed -i '' 's/uniprotId\tSV\thgvspShort\tF_score\tF_impact\tMSA\tMAV/uniprotId\tsv\thgvspShort\tf_score\tf_impact\tmsa\tmav/' ${DIR}/../data/common_input/mutationassessor4_for_genome_nexus.tsv