Merge pull request #537 from HaymanConsulting/TCF-mods2

Flexible floating platforms

cmake/OpenfastFortranOptions.cmake

@@ -120,7 +120,7 @@ macro(set_fast_gfortran)
 
   # debug flags
   if(CMAKE_BUILD_TYPE MATCHES Debug)
-    set( CMAKE_Fortran_FLAGS_DEBUG "${CMAKE_Fortran_FLAGS_DEBUG} -fcheck=all -pedantic -fbacktrace " )
+    set( CMAKE_Fortran_FLAGS_DEBUG "${CMAKE_Fortran_FLAGS_DEBUG} -fcheck=all,no-array-temps -pedantic -fbacktrace " )
   endif()
 
   if(CYGWIN)
@@ -167,7 +167,7 @@ macro(set_fast_intel_fortran_posix)
 
   # debug flags
   if(CMAKE_BUILD_TYPE MATCHES Debug)
-    set( CMAKE_Fortran_FLAGS_DEBUG "${CMAKE_Fortran_FLAGS_DEBUG} -check all -traceback" )
+    set( CMAKE_Fortran_FLAGS_DEBUG "${CMAKE_Fortran_FLAGS_DEBUG} -check all,no-array-temps -traceback" )
   endif()
 
   # OPENMP

docs/Makefile

@@ -0,0 +1,19 @@
+
+# You can set these variables from the command line.
+ALLSPHINXOPTS =  -c conf.py 
+SPHINXBUILD   = sphinx-build
+PAPER         =
+ALLSPHINXOPTS   = -d _build/doctrees  $(SPHINXOPTS) .
+
+BUILDDIR = _build
+
+
+all: html
+
+$(BUILDDIR):
+	mkdir $(BUILDDIR)
+
+html: $(BUILDDIR)
+	$(SPHINXBUILD) -b html $(ALLSPHINXOPTS) $(BUILDDIR) 
+	@echo
+	@echo "Build finished. The HTML pages are in _build/html."

docs/conf.py

@@ -245,7 +245,10 @@ def runDoxygen(sourcfile, doxyfileIn, doxyfileOut):
 ]
 
 def setup(app):
-    app.add_css_file('css/math_eq.css')
+    try:
+        app.add_css_file('css/math_eq.css')
+    except:
+        pass
     app.add_object_type(
         "confval",
         "confval",

docs/source/user/index.rst

@@ -17,6 +17,7 @@ Details on the transition from FAST v8 to OpenFAST may be found in :numref:`fast
    aerodyn-olaf/index.rst
    aerodyn-aeroacoustics/index.rst
    beamdyn/index.rst
+   subdyn/index.rst
    elastodyn/index.rst
    inflowwind/index.rst
    fast_to_openfast.rst

docs/source/user/subdyn/.gitignore

@@ -0,0 +1,4 @@
+_build*
+*.pdf
+*.docx
+_*

docs/source/user/subdyn/Makefile

@@ -0,0 +1,136 @@
+# Makefile for Sphinx documentation
+#
+MAIN=SubDyn
+INKSCAPE="C:/Program Files/Inkscape/inkscape.exe"
+
+# You can set these variables from the command line.
+SPHINXOPTS    =
+SPHINXBUILD   = sphinx-build
+PAPER         =
+
+# Internal variables.
+PAPEROPT_a4     = -D latex_paper_size=a4
+PAPEROPT_letter = -D latex_paper_size=letter
+ALLSPHINXOPTS   = -d _build/doctrees $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) .
+
+
+SVGDIR=figs
+SVGOUTDIR=figs
+SVGS=$(notdir $(wildcard $(SVGDIR)/*.svg))
+SVGS2PDFS=$(patsubst %,$(SVGOUTDIR)/%,$(SVGS:.svg=.pdf))
+SVGS2PNGS=$(patsubst %,$(SVGOUTDIR)/%,$(SVGS:.svg=.png))
+#INKSCAPE=inkscape
+
+
+.PHONY: help clean html dirhtml pickle json htmlhelp qthelp latex changes linkcheck doctest
+
+all: pdf
+
+doc2rst:
+	pandoc -F pandoc-crossref -F pandoc-citeproc -s -t rst --toc SubDyn_Manual_Rev037.docx -o output.rst   --bibliography=references_SD.bib
+
+# --wrap=preserve
+# -F pandoc-crossref
+# -F pandoc-eqnos
+# --number-section
+
+
+help:
+	@echo "Please use \`make <target>' where <target> is one of"
+	@echo "  pdf       to make pdf from LaTeX files (uses latex)"
+	@echo "  html      to make standalone HTML files"
+	@echo "  dirhtml   to make HTML files named index.html in directories"
+	@echo "  pickle    to make pickle files"
+	@echo "  json      to make JSON files"
+	@echo "  htmlhelp  to make HTML files and a HTML help project"
+	@echo "  qthelp    to make HTML files and a qthelp project"
+	@echo "  latex     to make LaTeX files, you can set PAPER=a4 or PAPER=letter"
+	@echo "  changes   to make an overview of all changed/added/deprecated items"
+	@echo "  linkcheck to check all external links for integrity"
+	@echo "  doctest   to run all doctests embedded in the documentation (if enabled)"
+
+clean:
+	-rm -rf _build/*
+
+pdf: latex pdf-compile 
+# 	diff
+# 	cd _build/latex && make all-pdf
+
+pdf-compile: 
+	cd _build/latex && pdflatex $(MAIN).tex
+# 	cd _build/latex && make all-pdf
+
+pdf-html: pdf html
+	cp _build/latex/sampledoc.pdf _build/html
+
+diff:
+	cd _build/latex  && latexdiff -p ../../LatexDiffPreamble.tex $(MAIN)-old.tex $(MAIN).tex > $(MAIN)-diff.tex
+	cd _build/latex  && cp $(MAIN).aux $(MAIN)-diff.aux
+	cd _build/latex  && pdflatex --interaction=nonstopmode $(MAIN)-diff.tex   
+
+# Rule to create pdf or png from svg
+$(SVGOUTDIR)/%.pdf:$(SVGDIR)/%.svg 
+	$(INKSCAPE) -A -D --file="$<" "$@"
+$(SVGOUTDIR)/%.png:$(SVGDIR)/%.svg 
+	$(INKSCAPE) -D --export-dpi 300  --file="$<" -e "$@"
+
+
+html:
+	$(SPHINXBUILD) -b html $(ALLSPHINXOPTS) _build/html
+	@echo
+	@echo "Build finished. The HTML pages are in _build/html."
+
+dirhtml:
+	$(SPHINXBUILD) -b dirhtml $(ALLSPHINXOPTS) _build/dirhtml
+	@echo
+	@echo "Build finished. The HTML pages are in _build/dirhtml."
+
+pickle:
+	$(SPHINXBUILD) -b pickle $(ALLSPHINXOPTS) _build/pickle
+	@echo
+	@echo "Build finished; now you can process the pickle files."
+
+json:
+	$(SPHINXBUILD) -b json $(ALLSPHINXOPTS) _build/json
+	@echo
+	@echo "Build finished; now you can process the JSON files."
+
+htmlhelp:
+	$(SPHINXBUILD) -b htmlhelp $(ALLSPHINXOPTS) _build/htmlhelp
+	@echo
+	@echo "Build finished; now you can run HTML Help Workshop with the" \
+	      ".hhp project file in _build/htmlhelp."
+
+qthelp:
+	$(SPHINXBUILD) -b qthelp $(ALLSPHINXOPTS) _build/qthelp
+	@echo
+	@echo "Build finished; now you can run "qcollectiongenerator" with the" \
+	      ".qhcp project file in _build/qthelp, like this:"
+	@echo "# qcollectiongenerator _build/qthelp/sampledoc.qhcp"
+	@echo "To view the help file:"
+	@echo "# assistant -collectionFile _build/qthelp/sampledoc.qhc"
+
+latex: $(SVGS2PNGS)
+	cp -r figs _build/latex
+	$(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) _build/latex
+	@echo
+	@echo "Build finished; the LaTeX files are in _build/latex."
+	@echo "Run \`make all-pdf' or \`make all-ps' in that directory to" \
+	      "run these through (pdf)latex."
+
+changes:
+	$(SPHINXBUILD) -b changes $(ALLSPHINXOPTS) _build/changes
+	@echo
+	@echo "The overview file is in _build/changes."
+
+linkcheck:
+	$(SPHINXBUILD) -b linkcheck $(ALLSPHINXOPTS) _build/linkcheck
+	@echo
+	@echo "Link check complete; look for any errors in the above output " \
+	      "or in _build/linkcheck/output.txt."
+
+doctest:
+	$(SPHINXBUILD) -b doctest $(ALLSPHINXOPTS) _build/doctest
+	@echo "Testing of doctests in the sources finished, look at the " \
+	      "results in _build/doctest/output.txt."
+

docs/source/user/subdyn/appendixA.rst

@@ -0,0 +1,13 @@
+.. _sd_appendix_A:
+
+Appendix A. OC4 Jacket Input File
+=================================
+
+SubDyn's primary input file 
+:download:`(OC4 Jacket SubDyn's Input File) <./examples/OC4_Jacket_SD_Input.dat>`: 
+
+This file includes information on the integration method (e.g., Adams-Bashforth 4 :sup:`th`} order), 
+numerical-solution parameters (e.g., integration time interval, static solver flag, numer of modes to retain within the Craig-Bampton reduction), 
+finite element analysis information (beam element model, number of elements per member),
+and the geometric definition of the beam members via joints, member connectivity, and member cross-sectional properties.  
+This file also specifies any SSI input files (soil/pile stiffness and mass matrices).

docs/source/user/subdyn/appendixB.rst

@@ -0,0 +1,12 @@
+.. _sd_appendix_B:
+
+Appendix B. OC4 Jacket Driver File
+==================================
+
+SubDyn's Driver Input File 
+:download:`(OC4 Jacket Driver File) <./examples/OC4_Jacket_SD_Driver.dvr>`: 
+
+This file includes information on the environmental conditions (gravity and water depth), 
+numerical-solution parameters (e.g., integration time interval, numer of time-steps), TP reference point coordinates in global reference frame, 
+rotation angle of the structure geometry in degrees about the global Z axis, the input mode for the TP reference point displacements, velocities, and accelerations (steady-state or time-series from file) and any related input
+file if not steady-state input.

docs/source/user/subdyn/appendixC.rst

@@ -0,0 +1,9 @@
+.. _sd_appendix_C:
+
+Appendix C. OC4 Jacket SSI Input File
+=====================================
+
+SubDyn's SSI File 
+:download:`(OC4 Jacket SSI File) <./examples/OC4_Jacket_SD_SSI.txt>`: 
+
+This file includes information on the stiffness of embedded-pile/soil combination.