fix partitioning (#6939)

broadinstitute · Nov 5, 2020 · 39dbb1a · 39dbb1a
1 parent bb0c361
commit 39dbb1a
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Showing 2 changed files with 4 additions and 2 deletions.
diff --git a/scripts/variantstore_wdl/ImportArrays.wdl b/scripts/variantstore_wdl/ImportArrays.wdl
@@ -174,8 +174,9 @@ task LoadArrays {
       fi
       set +e
       bq show --project_id ~{project_id} $SAMPLE_LIST_TABLE > /dev/null
+      BQ_SHOW_RC=$?
       set -e
-      if [ $? -ne 0 ]; then
+      if [ $BQ_SHOW_RC -ne 0 ]; then
         echo "making table $SAMPLE_LIST_TABLE"
         bq --location=US mk --project_id=~{project_id} $SAMPLE_LIST_TABLE ~{sample_list_schema}
         #TODO: add a Google Storage Transfer for the table when we make it.

diff --git a/scripts/variantstore_wdl/ImportGenomes.wdl b/scripts/variantstore_wdl/ImportGenomes.wdl
@@ -210,8 +210,9 @@ task LoadData {
     if [ $NUM_FILES -gt 0 ]; then
       set +e
       bq show --project_id ~{project_id} $TABLE > /dev/null
+      BQ_SHOW_RC=$?
       set -e
-      if [ $? -ne 0 ]; then
+      if [ $BQ_SHOW_RC -ne 0 ]; then
         echo "making table $TABLE"
         bq --location=US mk ${PARTITION_STRING} --project_id=~{project_id} $TABLE ~{schema}
         #TODO: add a Google Storage Transfer for the table when we make it.