Updating stork files, implementing the "TestApp" standard for compili…

…ng, and adding directory for compiling a falcon-unit-* binary and developing unit tests

(refs idaholab#42 idaholab/moose#9704) (kind of refs idaholab#46)

.gitignore

@@ -9,15 +9,19 @@ tpl/tetgen/tetgen
 *-opt
 *-dbg
 *-oprof
+*-prof
+*-devel
 *.e
 *.nav
 *.log
 *.aux
 *.toc
 *.snm
 *.csv
+*.csv.*
 *.dylib
 *.so
+*.so.*
 *.gitignore*
 *.vrb
 *.jou
@@ -37,6 +41,7 @@ tpl/tetgen/tetgen
 *.spl
 *.idx
 traceout*.txt
+temp_print_trace.*
 *.xda
 *.xda.*
 *.xdr
@@ -52,6 +57,7 @@ traceout*.txt
 *.mpx
 *.btr
 *.xml
+*.xml.*
 *.gmv
 *.plt
 *.slh
@@ -66,52 +72,53 @@ traceout*.txt
 *.out
 *.vtk
 *.vtu
+*.pvtu
 *.node
 .depend
+*.png
+*.svg
+*.gif
+*.tif
+*.jpg
+*.tiff
+*.ps
+*.bmp
+*.mp4
+*.webm
+*.ico
+*.html
+*.xyz
+*Revision.h
+*.json
+*.json.*
+*.bak
+*.processor.*
+.clang_complete
+.failed_tests
+failed-unittest
+compile_commands.json
+build
 
-# Allow .e files in gold directories (7 levels)
-!/gold/*.e
-!/*/gold/*.e
-!/*/*/gold/*.e
-!/*/*/*/gold/*.e
-!/*/*/*/*/gold/*.e
-!/*/*/*/*/*/gold/*.e
-!/*/*/*/*/*/*/gold/*.e
-!/*/*/*/*/*/*/*/gold/*.e
-
-
-# Allow .csv files in gold directories (7 levels)
-!/gold/*.csv
-!/*/gold/*.csv
-!/*/*/gold/*.csv
-!/*/*/*/gold/*.csv
-!/*/*/*/*/gold/*.csv
-!/*/*/*/*/*/gold/*.csv
-!/*/*/*/*/*/*/gold/*.csv
-!/*/*/*/*/*/*/*/gold/*.csv
-
-# Allow .vtk files in gold directories (7 levels)
-!/gold/*.vtk
-!/*/gold/*.vtk
-!/*/*/gold/*.vtk
-!/*/*/*/gold/*.vtk
-!/*/*/*/*/gold/*.vtk
-!/*/*/*/*/*/gold/*.vtk
-!/*/*/*/*/*/*/gold/*.vtk
-!/*/*/*/*/*/*/*/gold/*.vtk
-
-# Allow .vtu files in gold directories (7 levels)
-!/gold/*.vtu
-!/*/gold/*.vtu
-!/*/*/gold/*.vtu
-!/*/*/*/gold/*.vtu
-!/*/*/*/*/gold/*.vtu
-!/*/*/*/*/*/gold/*.vtu
-!/*/*/*/*/*/*/gold/*.vtu
-!/*/*/*/*/*/*/*/gold/*.vtu
+# Allow certain files in gold directories
+!**/gold/*.e
+!**/gold/*.e-s*
+!**/gold/*.csv
+!**/gold/*.csv.*
+!**/gold/*.vtk
+!**/gold/*.vtu
+!**/gold/*.pvtu
+!**/gold/*.xml*
+!**/gold/*.json*
 
 peacock_run_tmp.i
 yaml_dump*
+test/tests/outputs/format/dump.i
+
+# Generated header file
+MooseRevision.h
+
+# Precompiled headers
+moose/include/base/Precompiled.h.gch
 
 # test garbagge
 *.FAILED.txt
@@ -128,12 +135,14 @@ yaml_dump*
 .*.swp
 .*.swo
 
+framework/contrib/exodiff/exodiff
+
 # Mac garbage
 .DS_Store
 *.dSYM
 
-# Unit testing stuff
-moose_unit/test_results.xml
+# Unit testing stuffbmoose_unit/test_results.xml
+!unit/data/csv/*.csv
 
 # gcov code coverage files
 *.gcno
@@ -147,8 +156,20 @@ moose_unit/test_results.xml
 peacock_*.i
 peacock_*.e
 
+# On linux, shared libs end in .0 sometimes
+libpcre-opt*
+libpcre-dbg*
+libmoose-opt*
+libmoose-dbg*
+
 #doxygen generated
 */doc/doxygen/html/*
+*/doc/doxygen/**/*
+moose/doc/doxygen/html/*
+modules/*/doc/doxygen/html/*
+tutorials/*/*/doc/doxygen/html/*
+ICE/
+framework/contrib/asio/
 
 # Restartable Data
 *.rd
@@ -160,6 +181,74 @@ peacock_*.e
 *.cpa-*
 *.cpr-*
 
+# Ignore petsc arch
+petsc/arch-*/*
+
+# phase_field/tests/solution_rasterizer
+out.xyz
+
+# JIT and automatic differentiation cache files
+.jitcache/
+.jitdir/
+tmp_jit_*
+
+# Do not store ipython notebook checkpoints
+*-checkpoint.ipynb*
+
+# HIT
+framework/contrib/hit/hit
+
+# MooseDocs
+site
+python/MooseDocs/test/output
+!**/doc/content/**/*.md
+!**/doc/content/**/*.jpg
+!**/doc/content/**/*.jpeg
+!**/doc/content/**/*.gif
+!**/doc/content/**/*.png
+!**/doc/content/**/*.svg
+!**/doc/content/**/*.ogg
+!**/doc/content/**/*.webm
+!**/doc/content/**/*.mp4
+!**/doc/content/**/*.css
+!**/doc/content/**/*.js
+!**/doc/content/**/*.bib
+!**/doc/content/**/*.woff
+!**/doc/content/**/*.woff2
+!python/MooseDocs/test/gold/**/*.json
+!python/MooseDocs/test/gold/**/*.html
+!python/MooseDocs/test/gold/**/*.tex
+.ruby-version
+
+# Chigger
+!python/chigger/tests/**/gold/*.png
+!python/chigger/tests/input/*.e*
+!python/chigger/logos/*.png
+!python/chigger/contrib/*.xml
+
+# Peacock
+python/peacock/tests/exodus_tab/TestOutputPlugin_repr.py
+python/peacock/tests/exodus_tab/TestExodusPluginManager_repr.py
+python/peacock/tests/input_tab/InputFileEditor/fsp_test.i
+python/peacock/tests/postprocessor_tab/TestPostprocessorPluginManager_test_script.py
+!python/peacock/tests/**/gold/*.png
+!python/peacock/icons/**/*.*
+!python/peacock/tests/**/input/*.*
+peacock_tmp_diff.exo
+*.e.diff
+
+# configure
+_configs.sed
+autom4te.cache
+config.status
+*MooseConfig.h
+*MooseConfig.h.tmp
+conf_vars.mk
+
+# GPerf performance
+*.prof
+*.heap
+
 lib
 include/FalconRevision.h
 include/base/FalconRevision.h

Makefile

@@ -20,18 +20,17 @@ include $(FRAMEWORK_DIR)/build.mk
 include $(FRAMEWORK_DIR)/moose.mk
 
 ################################## MODULES ####################################
-#PHASE_FIELD       := yes
-POROUS_FLOW       := yes
-TEMSOR_MESHANICS  := yes
 GEOCHEMISTRY      := yes
+POROUS_FLOW       := yes
+TENSOR_MECHANICS  := yes
 include           $(MOOSE_DIR)/modules/modules.mk
 ###############################################################################
 
 # dep apps
 APPLICATION_DIR    := $(CURDIR)
 APPLICATION_NAME   := falcon
 BUILD_EXEC         := yes
-DEP_APPS           := $(shell $(FRAMEWORK_DIR)/scripts/find_dep_apps.py $(APPLICATION_NAME))
+GEN_REVISION       := no
 include            $(FRAMEWORK_DIR)/app.mk
 
 ###############################################################################

include/base/FalconApp.h

@@ -12,21 +12,18 @@
 /*            See COPYRIGHT for full restrictions               */
 /****************************************************************/
 
-#ifndef FALCONAPP_H
-#define FALCONAPP_H
+#pragma once
 
 #include "MooseApp.h"
 
 class FalconApp : public MooseApp
 {
 public:
+  static InputParameters validParams();
+
   FalconApp(InputParameters parameters);
+  virtual ~FalconApp();
 
-  static void registerAll(Factory & factory, ActionFactory & action_factory, Syntax & syntax);
   static void registerApps();
-
-public:
-  static InputParameters validParams();
+  static void registerAll(Factory & f, ActionFactory & af, Syntax & s);
 };
-
-#endif //FALCONAPP_H

scripts/install-format-hook.sh

@@ -0,0 +1,25 @@
+#!/bin/bash
+
+REPO_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )/../"
+hookfile="$REPO_DIR/.git/hooks/pre-commit"
+
+if [[ -f $hookfile ]]; then
+    echo "'$hookfile' already exists - aborting" 1>&2
+    exit 1
+fi
+
+echo '#!/bin/bash
+patch=$(git clang-format --diff -- $(git diff --staged --name-only -- src include tests unit))
+if [[ "$patch" =~ "no modified files to format" || "$patch" =~ "clang-format did not modify any files" ]]; then
+    echo "" > /dev/null
+else
+    echo ""
+    echo "Your code is not properly formatted." >&2
+    echo "Run 'git clang-format' to resolve the following issues:" >&2
+    echo ""
+    echo "$patch"
+    exit 1
+fi
+' > $hookfile
+
+chmod a+x $hookfile