[ARVADOS] updated: 2.1.0-1946-g3d7125ec9

[Git user]

Summary of changes:
 tools/arvbox/bin/arvbox                                  | 2 +-
 tools/arvbox/lib/arvbox/docker/common.sh                 | 5 +++--
 tools/arvbox/lib/arvbox/docker/service/ready/run-service | 2 +-
 3 files changed, 5 insertions(+), 4 deletions(-)

       via  3d7125ec931701fa7367234f480da5a9fd81ca78 (commit)
      from  4752421d3d4b3a0f6afe93ce3356961d1d81b494 (commit)

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commit 3d7125ec931701fa7367234f480da5a9fd81ca78
Author: Peter Amstutz <peter.amstutz at curii.com>
Date:   Thu Feb 17 20:36:11 2022 -0500

    Readjust arvbox GEM_HOME to ~/.gem to avoid stepping on base image gems
    
    Instead of replacing the entire /var/lib/arvados/lib/ruby/gems
    directory, mount it in the place of the default user directory that
    'gem' already looks for.
    
    refs #18789
    
    Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz at curii.com>

diff --git a/tools/arvbox/bin/arvbox b/tools/arvbox/bin/arvbox
index e7d03677e..e021b442f 100755
--- a/tools/arvbox/bin/arvbox
+++ b/tools/arvbox/bin/arvbox
@@ -143,7 +143,7 @@ docker_run_dev() {
            "--volume=$PG_DATA:/var/lib/postgresql:rw" \
            "--volume=$VAR_DATA:$ARVADOS_CONTAINER_PATH:rw" \
            "--volume=$PASSENGER:/var/lib/passenger:rw" \
-	   "--volume=$GEMS:/var/lib/arvados/lib/ruby/gems:rw" \
+	   "--volume=$GEMS:/var/lib/arvados-arvbox/.gem:rw" \
            "--volume=$PIPCACHE:/var/lib/pip:rw" \
            "--volume=$NPMCACHE:/var/lib/npm:rw" \
            "--volume=$GOSTUFF:/var/lib/gopath:rw" \
diff --git a/tools/arvbox/lib/arvbox/docker/common.sh b/tools/arvbox/lib/arvbox/docker/common.sh
index c44e7c410..5e16264c8 100644
--- a/tools/arvbox/lib/arvbox/docker/common.sh
+++ b/tools/arvbox/lib/arvbox/docker/common.sh
@@ -12,7 +12,8 @@ export npm_config_cache_min=Infinity
 export R_LIBS=/var/lib/Rlibs
 export HOME=$(getent passwd arvbox | cut -d: -f6)
 export ARVADOS_CONTAINER_PATH=/var/lib/arvados-arvbox
-GEMLOCK=/var/lib/arvados/lib/ruby/gems/gems.lock
+export GEM_HOME=$HOME/.gem
+GEMLOCK=$GEM_HOME/gems.lock
 
 defaultdev=$(/sbin/ip route|awk '/default/ { print $5 }')
 dockerip=$(/sbin/ip route | grep default | awk '{ print $3 }')
@@ -63,7 +64,7 @@ else
 fi
 
 run_bundler() {
-    flock $GEMLOCK /var/lib/arvados/bin/gem install --no-document bundler:$BUNDLER_VERSION
+    flock $GEMLOCK /var/lib/arvados/bin/gem install --no-document --user bundler:$BUNDLER_VERSION
     if test -f Gemfile.lock ; then
         frozen=--frozen
     else
diff --git a/tools/arvbox/lib/arvbox/docker/service/ready/run-service b/tools/arvbox/lib/arvbox/docker/service/ready/run-service
index 6ec788589..5007fe0be 100755
--- a/tools/arvbox/lib/arvbox/docker/service/ready/run-service
+++ b/tools/arvbox/lib/arvbox/docker/service/ready/run-service
@@ -63,7 +63,7 @@ fi
 
 if ! [[ -z "$waiting" ]] ; then
     if ps x | grep -v grep | grep "bundle install" > /dev/null; then
-        gemcount=$(ls /var/lib/arvados/lib/ruby/gems/*/gems 2>/dev/null | wc -l)
+        gemcount=$(ls /var/lib/arvados/lib/ruby/gems/*/gems /var/lib/arvados-arvbox/.gem/ruby/*/gems 2>/dev/null | wc -l)
 
         gemlockcount=0
         for l in /usr/src/arvados/services/api/Gemfile.lock \

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