Added clang-format binaries & helper scripts

.clang-format

@@ -0,0 +1,13 @@
+BasedOnStyle:  Google
+BreakBeforeBraces: Mozilla
+
+AllowShortLoopsOnASingleLine: false
+AccessModifierOffset: -4
+BreakConstructorInitializersBeforeComma: true
+ColumnLimit: 100
+IndentWidth: 4
+PointerAlignment: Left
+TabWidth: 4
+
+ReflowComments: false  # protect ASCII art in comments
+KeepEmptyLinesAtTheStartOfBlocks: true

meson.build

@@ -85,6 +85,7 @@ if not meson.is_subproject()
     pbbam_python = find_program('python')
 
     if get_option('enable-tests')
+      pbbam_clang_formatter = find_program('tools/check-formatting')
       subdir('tests')
     endif
   endif

tests/meson.build

@@ -42,6 +42,8 @@ custom_target('pbbam_generate_data',
 
 test('pbbam test', pbbam_test)
 
+test('pbbam formatting check', pbbam_clang_formatter, args : ['--all'], workdir : meson.source_root())
+
 pbbamify_synthetic_dataset = configure_file(
   input : files('data/pbbamify/synthetic_movie_all.subreadset.xml.in'),
   output : 'synthetic_movie_all.subreadset.xml',

tools/check-formatting

@@ -0,0 +1,34 @@
+#!/usr/bin/env bash
+
+PLATFORM=$(uname)
+TOOLSPATH="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd -P)"
+CLANGFORMAT="${TOOLSPATH}/${PLATFORM}/clang-format -style=file"
+
+if [ "$1" == "--all" ]
+then
+    find include src tests/src tests/unit \( -name *.cpp -or -name *.h \) -print0 \
+    | xargs -n1 -0 ${CLANGFORMAT} -output-replacements-xml \
+    | grep -c "<replacement " > /dev/null
+    grepCode=$?
+elif [ "$1" == "--staged" ]
+then
+    git diff --cached --name-only --diff-filter=ACMRT | grep -e '.*\.h$' -e '.*\.cpp' -v '**third-party/*' \
+    | xargs -n1 ${CLANGFORMAT} -output-replacements-xml \
+    | grep -c "<replacement " >/dev/null
+    grepCode=$?
+else
+    echo "Please specify --all or --staged"
+    exit 1
+fi
+
+# grep exits 0 => found needed formatting changes
+if [ $grepCode -ne 0 ]
+then
+    echo "Formatting looks good!"
+    exit 0
+else
+    echo "****************************************************"
+    echo "Code needs formatting!  Please use 'tools/format-all'"
+    echo "****************************************************"
+    exit 1
+fi

tools/format-all

@@ -0,0 +1,9 @@
+#!/usr/bin/env bash
+
+# This command can be run by the user to clang-format everything.
+
+PLATFORM=$(uname)
+TOOLSPATH="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd -P)"
+CLANGFORMAT="${TOOLSPATH}/${PLATFORM}/clang-format -style=file"
+
+find include src tests/src tests/unit \( -name *.cpp -or -name *.h \) -print0 | xargs -n1 -0 ${CLANGFORMAT} -i