Changes cmake process to place generated site into build directory, adds latex compilation to cmakelists

.gitignore

@@ -3,7 +3,8 @@
 __pycache__/
 build/
 data/
-*_data/
+doxygen_site/
+data_*/
 
 # C++ Build Files
 *.d

CMakeLists.txt

@@ -37,13 +37,13 @@ LIST( APPEND CMAKE_MODULE_PATH ${PROJECT_SOURCE_DIR}/cmake )
 FIND_PACKAGE(Jupyter)
 IF(NBCONVERT_FOUND)
     ADD_CUSTOM_TARGET(notebook-docs
-        ${CMAKE_CURRENT_SOURCE_DIR}/cmake/convert_nb ${NBCONVERT_EXECUTABLE} ${CMAKE_CURRENT_SOURCE_DIR}/docs
+        ${CMAKE_CURRENT_SOURCE_DIR}/cmake/convert_nb ${NBCONVERT_EXECUTABLE} ${CMAKE_CURRENT_BINARY_DIR}/doxygen_site
         WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
         COMMENT "Converting Jupyter Notebooks to HTML" VERBATIM
     )
 
     ADD_CUSTOM_TARGET(notebooks
-        ${CMAKE_CURRENT_SOURCE_DIR}/cmake/convert_nb ${NBCONVERT_EXECUTABLE} ${CMAKE_CURRENT_SOURCE_DIR}/docs --update
+        ${CMAKE_CURRENT_SOURCE_DIR}/cmake/convert_nb ${NBCONVERT_EXECUTABLE} ${CMAKE_CURRENT_BINARY_DIR}/doxygen_site --update
         WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
         COMMENT "Re-Running notebooks and converting to HTML" VERBATIM
     )
@@ -53,23 +53,24 @@ ENDIF(NBCONVERT_FOUND)
 FIND_PACKAGE(Doxygen)
 IF(DOXYGEN_FOUND)
     CONFIGURE_FILE(
-        ${CMAKE_CURRENT_SOURCE_DIR}/Doxyfile.in
-        ${CMAKE_CURRENT_BINARY_DIR}/docs/Doxyfile @ONLY
+        ${CMAKE_CURRENT_SOURCE_DIR}/docs/Doxyfile.in
+        ${CMAKE_CURRENT_BINARY_DIR}/doxygen_site/Doxyfile @ONLY
         )
     ADD_CUSTOM_TARGET(docs
-        ${DOXYGEN_EXECUTABLE} ${CMAKE_CURRENT_BINARY_DIR}/docs/Doxyfile
-        WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/docs
+        ${DOXYGEN_EXECUTABLE} ${CMAKE_CURRENT_BINARY_DIR}/doxygen_site/Doxyfile
+        WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/doxygen_site
         COMMENT "Generating API documentation with Doxygen" VERBATIM
         DEPENDS notebook-docs
     )
     ADD_CUSTOM_TARGET(docs-deploy
-        rsync -r . caleb@fangmeier.tech:/var/www/tttt/docs
-        WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}/docs
+        rsync -r ./doxygen_site/ caleb@fangmeier.tech:/var/www/tttt
+        WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}
         COMMENT "Deploy documentation to tttt.fangmeier.tech" VERBATIM
         DEPENDS docs
     )
 ENDIF(DOXYGEN_FOUND)
 
+ADD_SUBDIRECTORY(docs)
 
 FIND_PACKAGE(ROOT REQUIRED)
 INCLUDE_DIRECTORIES( SYSTEM ${ROOT_INCLUDE_DIR} ${CMAKE_CURRENT_SOURCE_DIR})
@@ -79,13 +80,15 @@ SET( CLINGDICTFILE ${CMAKE_CURRENT_BINARY_DIR}/clingdict.cpp )
 ROOT_GENERATE_DICTIONARY( "" ${CMAKE_CURRENT_SOURCE_DIR}/filval_root/LinkDef.hpp ${CLINGDICTFILE} "" )
 ADD_LIBRARY( filval SHARED ${CLINGDICTFILE} )
 
-
+# Compiles main analysis routine
 ADD_EXECUTABLE(main ${CMAKE_CURRENT_SOURCE_DIR}/analysis/TTTT_Analysis.cpp)
 TARGET_LINK_LIBRARIES( main filval ${ROOT_LIBRARIES} )
 
+# Compiles MVA creation routine
 ADD_EXECUTABLE(mva ${CMAKE_CURRENT_SOURCE_DIR}/analysis/MVA_Creation.cpp)
 TARGET_LINK_LIBRARIES( mva filval ${ROOT_LIBRARIES} )
 
+# Compiles Examples
 ADD_CUSTOM_TARGET(examples
     COMMENT "Building Examples"
 )

cmake/convert_nb

@@ -18,6 +18,6 @@ fi
 nb_files=$(find . -type f -name "*.ipynb" ! -path "*/.ipynb_checkpoints/*")
 while read -r nb_file; do
     echo "Converting file: $nb_file"
-    echo $1 --to html --template full $exec_opt --output-dir "$2" $nb_file
+#     echo $1 --to html --template full $exec_opt --output-dir "$2" $nb_file
     $1 --to html --template full $exec_opt --output-dir "$2" "$nb_file"
 done <<< "$nb_files"

docs/CMakeLists.txt

@@ -0,0 +1,12 @@
+
+IF(LATEX_COMPILER)
+    SET(LATEX_DEFAULT_BUILD pdf)
+    SET(PDFLATEX_COMPILER xelatex)
+    MESSAGE(STATUS "Found LaTeX compiler.")
+    INCLUDE(${CMAKE_SOURCE_DIR}/cmake/UseLATEX.cmake)
+
+    ADD_SUBDIRECTORY(presentations/intro/)
+
+ELSE(LATEX_COMPILER)
+    MESSAGE(STATUS "No LaTeX found, cannot compile LaTeX documents")
+ENDIF(LATEX_COMPILER)

Doxyfile.in

@@ -58,7 +58,7 @@ PROJECT_LOGO           =
 # entered, it will be relative to the location where doxygen was started. If
 # left blank the current directory will be used.
 
-OUTPUT_DIRECTORY       = @CMAKE_CURRENT_SOURCE_DIR@/docs/
+OUTPUT_DIRECTORY       = @CMAKE_CURRENT_BINARY_DIR@/doxygen_site/
 
 # If the CREATE_SUBDIRS tag is set to YES then doxygen will create 4096 sub-
 # directories (in 2 levels) under the output directory of each output format and
@@ -791,6 +791,7 @@ WARN_LOGFILE           =
 # Note: If this tag is empty the current directory is searched.
 
 INPUT                  = @CMAKE_CURRENT_SOURCE_DIR@/ \
+                         @CMAKE_CURRENT_SOURCE_DIR@/docs \
                          @CMAKE_CURRENT_SOURCE_DIR@/filval/ \
                          @CMAKE_CURRENT_SOURCE_DIR@/filval/examples \
                          @CMAKE_CURRENT_SOURCE_DIR@/filval_root \
@@ -1117,7 +1118,7 @@ GENERATE_HTML          = YES
 # This tag requires that the tag GENERATE_HTML is set to YES.
 
 # HTML_OUTPUT            = html
-HTML_OUTPUT            = @CMAKE_CURRENT_SOURCE_DIR@/docs/
+HTML_OUTPUT            = @CMAKE_CURRENT_BINARY_DIR@/doxygen_site/
 
 # The HTML_FILE_EXTENSION tag can be used to specify the file extension for each
 # generated HTML page (for example: .htm, .php, .asp).

docs/MVA__Creation_8cpp.html

@@ -1,165 +0,0 @@
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-<meta name="viewport" content="width=device-width, initial-scale=1"/>
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-<div class="textblock"><dl class="section author"><dt>Author</dt><dd>Caleb Fangmeier <a href="#" onclick="location.href='mai'+'lto:'+'cal'+'eb'+'@fa'+'ng'+'mei'+'er'+'.te'+'ch'; return false;">caleb<span style="display: none;">.nosp@m.</span>@fan<span style="display: none;">.nosp@m.</span>gmeie<span style="display: none;">.nosp@m.</span>r.te<span style="display: none;">.nosp@m.</span>ch</a> </dd></dl>
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-<h1><a class="anchor" id="LICENSE"></a>
-LICENSE</h1>
-<p>MIT License</p>
-<p>Copyright (c) 2017 Caleb Fangmeier</p>
-<p>Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:</p>
-<p>The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.</p>
-<p>THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.</p>
-<h1><a class="anchor" id="DESCRIPTION"></a>
-DESCRIPTION</h1>
-<p>MVA Creation script. This file demonstrates how to use filval_root's TMVA integration. </p>
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-<h2 class="memtitle"><span class="permalink"><a href="#a69ce557136cf74ba2e8540e06151bfa5">&#9670;&nbsp;</a></span>update_value()</h2>
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