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lines changed Original file line number Diff line number Diff line change @@ -96,20 +96,15 @@ jobs:
9696 jq --raw-output '.[] | select(.name=="Trichuris trichiura")._id'
9797 )
9898
99- ls -la /
100- ls -la /data
101- ls ~/
102- pwd
103- apollo jbrowse get-config > /home/ec2-user/data/config.json
104-
105- npm install -g @jbrowse/cli
99+ apollo jbrowse get-config > tmp.config.json
100+ scp tmp.config.json ec2-user@${{ steps.ec2-describe-instances.outputs.INSTANCE_ADDRESS }}:/home/ec2-user/data/
106101
107102 jbrowse add-track \
108103 /data/trichuris_muris.PRJEB126.WBPS19_vs_trichuris_trichiura.PRJEB535.WBPS19.paf \
109104 --load inPlace \
110105 --name "T. muris vs T. trichiura tblastx" \
111106 --assemblyNames "${MURIS_ID},${TRICHIURA_ID}" \
112- --target /home/ec2-user/data/config.json \
107+ --target /home/ec2-user/data/tmp. config.json \
113108 --force
114109
115110 apollo jbrowse set-config /data/config.json
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