Refactor for SCING

build.sh

@@ -1,7 +1,26 @@
-#!/bin/bash -e
+#!/bin/bash
 
 source config.sh
 
+# get download url for Cell Ranger
+if [ ! -n "$download_url" ]
+then
+    if [ ! -x "$(command -v scing)" ]
+    then
+        echo "Please install SCING CLI (https://github.com/hisplan/scing)."
+        exit 1
+    fi
+
+    out=`scing --no-logo download --site-url ${site_url}`
+    if [ $? != 0 ]
+    then
+        echo "$out"
+        exit 1
+    fi
+    download_url=$out
+fi
+
+# build ${image_name}:${version}
 docker build \
     --tag ${image_name}:${version} \
     --build-arg DOWNLOAD_URL=${download_url} \
@@ -15,7 +34,7 @@ cat Dockerfile \
     | sed 's/^ENTRYPOINT \[/# ENTRYPOINT \[/g' \
     | sed 's/^CMD \[/# CMD \[/g' > Dockerfile.cromwell
 
-# build it
+# build cromwell-${image_name}:${version}
 docker build \
     --tag cromwell-${image_name}:${version} \
     --build-arg DOWNLOAD_URL=${download_url} \

config.sh

@@ -1,6 +1,7 @@
 version="6.0.2"
 vdj_ref_version="5.0.0"
-download_url="https://cf.10xgenomics.com/releases/cell-exp/cellranger-6.0.2.tar.gz?Expires=1628576161&Policy=eyJTdGF0ZW1lbnQiOlt7IlJlc291cmNlIjoiaHR0cHM6Ly9jZi4xMHhnZW5vbWljcy5jb20vcmVsZWFzZXMvY2VsbC1leHAvY2VsbHJhbmdlci02LjAuMi50YXIuZ3oiLCJDb25kaXRpb24iOnsiRGF0ZUxlc3NUaGFuIjp7IkFXUzpFcG9jaFRpbWUiOjE2Mjg1NzYxNjF9fX1dfQ__&Signature=c4jpVDQb~oCKL~sUJvvhuOLTc1OwAK~g3JXeRFqXVhM9VXK4lXPGXUxAkUWsHZzZD2QAiONH4j2lNK44yFJaTqMNp1gzzWmsRXW-0HoSDZyxm4n9ikxVZgptXTSbSsMac7D7U71G0PPvc4v2M5cgHg-TJg7N2lVmw3QfVQkHC50rI60DL1VYxB-KMMjJ69xse5BlSsLfyKSRQQ9P-QhwMmluZIMVhWvcMSWKAqFmrth9trqtYkchXXX9~mxsAlYZJymaKRRoYJbJT~ctInx0jBmPz7EbUjLMdXhaeUQl2Uy~C9QH43ZvhAWb4~aphr6Iv8uYQw3wp7GoirURUII24A__&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA"
+site_url="https://support.10xgenomics.com/single-cell-vdj/software/downloads/6.0/"
+download_url=""
 
 # docker related
 registry="quay.io/hisplan"