make sure the check (and other) failures get forwarded correctly

ResearchLuxembourg · Oct 19, 2022 · 6cff989 · 6cff989
1 parent ff2d89d
commit 6cff989
Showing 1 changed file with 7 additions and 2 deletions.
diff --git a/run_pipeline.sh b/run_pipeline.sh
@@ -22,11 +22,16 @@ DOCKER="docker run --rm $MOUNT $IMAGE julia --project "
 mkdir -p output logs
 export RESTIMATOR_OUTDIR=output
 
-if $DOCKER components/check_input.jl "$FILE"
+$DOCKER components/check_input.jl "$FILE" 2>&1 | log check
+if [ ${PIPESTATUS[0]} -eq 0 ]
 then
+	st=0
 	$DOCKER components/estimate_r_t.jl "$FILE" 2>&1 | log rt
+	[ ${PIPESTATUS[0]} -eq 0 ] || st=1
 	$DOCKER components/estimate_r_eff.jl "$FILE" 2>&1 | log reff
+	[ ${PIPESTATUS[0]} -eq 0 ] || st=1
+	exit $st
 else
 	echo $0: check failed >&2
 	exit 1
-fi 2>&1 | log check
+fi