shellcheck ignore array references for now (SC2039) and run everywhere

Jenkinsfile

@@ -170,7 +170,7 @@ pipeline {
           steps {
             sh 'export'
             sh 'make distclean'
-            sh 'make shellcheck'
+            sh 'make shellcheck_all'
             sh 'make distclean'
           }
         }

Makefile

@@ -325,7 +325,7 @@ python_coverage:
 
 # static analyzers (scan-build, clang-tidy, cppcheck)
 # --------------------------------------------------------------------
-.PHONY: scan-build posix_sitl_default-clang clang-tidy clang-tidy-fix clang-tidy-quiet cppcheck shellcheck
+.PHONY: scan-build posix_sitl_default-clang clang-tidy clang-tidy-fix clang-tidy-quiet cppcheck shellcheck_all
 
 scan-build:
 	@export CCC_CC=clang
@@ -360,7 +360,7 @@ cppcheck: posix_sitl_default
 	@cppcheck -i$(SRC_DIR)/src/examples --enable=performance --std=c++11 --std=c99 --std=posix --project=$(SRC_DIR)/build/posix_sitl_default/compile_commands.json --xml-version=2 2> $(SRC_DIR)/build/cppcheck/cppcheck-result.xml > /dev/null
 	@cppcheck-htmlreport --source-encoding=ascii --file=$(SRC_DIR)/build/cppcheck/cppcheck-result.xml --report-dir=$(SRC_DIR)/build/cppcheck --source-dir=$(SRC_DIR)/src/
 
-shellcheck:
+shellcheck_all:
 	@$(SRC_DIR)/Tools/run-shellcheck.sh $(SRC_DIR)/ROMFS/px4fmu_common/
 	@make px4fmu-v2_default shellcheck
 

Tools/run-shellcheck.sh

@@ -24,12 +24,14 @@ echo "Running shellcheck in '$search_directory'."
 # SC2086: double quote to prevent globbing and word splitting
 # SC2166: allow the form [ $OUTPUT_MODE == fmu -o $OUTPUT_MODE == io ]
 # SC2148: allow files w/o shebang
+# SC2039: In POSIX sh, array references are undefined. TODO: fix this
 shellcheck -x \
 	-e SC1008 \
 	-e SC2086 \
 	-e SC2121 \
 	-e SC2148 \
 	-e SC2166 \
+	-e SC2039 \
 	$scripts
 ret=$?
 if [ $ret -ne 0 ]; then