pybind11: Python bindings (#27)

* Install deps with vcpkg

* Update README

* Fix vcpkg submodule

* Fix submodule

* Update install instructions

* Update README

* Update vcpkg submodule

* Auto-detect HDF5 static

* Fix HDF5.cmake

* Progress with wrappers

* Convert to manifest mode

* Update version string in vcpkg manifest

* Clarify vcpkg dep isntall

* Get pybind11 structure working

* Don't copy pybind11 repo to build

* Progress

* Add CARMA

* Update CMake for carma

* Progress with bindings

* Export package version

* Rename, expand python tests

* Finish GLDS

* Add Poisson system

* .gitignore compiled Python

* .gitignore .egg-info folder

* Progress with fits

* Use std and lds in gaussian and poission

* Finish Fits

* Add link to GitHub issue on const& return

* Change to succinct syntax for const& getters

* Update test_fits

* Rename ldsutils to bindutils

* Test f side effect in fits in overload

* Start uniform lists

* Fix UML move constructor bug

* Finish uniform mats and vecs

* Start UniformSystemLists

* Finish uniform lists

* Add install option

* Fix examples link

* Fig bugs in uniform lists

* Add virtual destructors, fix typos

* Progress

* Finish FitEM

* Bind FitSSID

* Fix Ctrl init bug when ctrl type in constructor

* Add some getters to ctrl

* Finish controllers

* Add test path to pyproject.toml

* Test ctrl.Reset()

* Includes in sctrl source

* Finish switched control

* Start test_examples

* Fix m to n_x in eg_glds_ctrl

* Add system copy methods

* Remove extra print en eg_glds_ctrl

* Fix Python build

* Finish eg_glds_ctrl.py

* Fix m dim to n_x in eg_plds_ctrl

* Finish eg_plds_ctrl.py

* Add plots to eg_glds_ctrl.py

* Plot plds_ctrl, fix m switching

* Remove redundant ctrl.sys print

* Fix typos

* Fix m to n_x in eg_glds_du_plds_ctrl.cpp

* Fix typo

* Finish eg_glds_du_plds_ctrl.py

* Print controller eg_glds_ctrl

* Fix typo in eg_plds_switched_ctrl.cpp

* Finish eg_sctrl sim

* Finish plds_switched_ctrl plots

* Fix m to n_x in eg_plds_est.cpp

* Finish eg_plds_est.py

* Add Sys getters, change to template

* Update Sys bindings: use template, add getters

* Finish eg_glds_fit.py

* Set seed in tests

* Format eg_glds_fit.py

* Finish eg_plds_fit.py

* Remove unneeded code from bindutils

* Clean up

* Set carma commit

* Add ldsctrlest README

* Update README with Py install details

* create System(Fit) constructors

* configure ctest

* Update vcpkg commit

* update docs source

* Update built docs

* bump to version 0.8.0

* Remove redundant built docs

* update .gitignore for docs

* Update "getting started"

* fix pybind11 submodule

* update carma version

* update vcpkg

* change vcpkg version

* Update docs source

* make Python tests less prone to plt errors

* update README

* add debug ideas to getting-started

* update docs source

* update built docs

Co-authored-by: kjohnsen <[email protected]>

.gitignore

@@ -1,103 +1,113 @@
-# Compiled source #
-###################
-*.com
-*.class
-*.exe
-*.o
-*.lo
-*.a
-*.lib
-*.la
-*.lai
-*.so
-*.dylib
-*.dll
-*.mex*
-
-# Packages #
-############
-# it's better to unpack these files and commit the raw source
-# git has its own built in compression methods
-*.7z
-*.dmg
-*.gz
-*.iso
-*.jar
-*.rar
-*.tar
-*.zip
-
-# Logs and databases #
-######################
-*.log
-*.sql
-*.sqlite
-
-# OS generated files #
-######################
-.DS_Store
-.DS_Store?
-._*
-.Spotlight-V100
-.Trashes
-ehthumbs.db
-Thumbs.db
-
-
-# Ignore .mat files. Git does not do well with big binary files. #
-##################################################################
-*.mat
-*.asv
-
-# Ignore TDT binary files. #
-############################
-*.sev
-*.Tbk
-*.Tdx
-*.tev
-*.tnt
-*.tsq
-
-# Ignore other binary/data files. #
-#############################
-*.dat
-*.bin
-*.kwik
-*.gsd
-*.ccf
-*.nev
-*.ns5
-*.h5
-
-# Ignore figures. #
-###################
-*.pdf
-*.svg
-*.eps
-*.png
-*.tif
-*.jpg
-
-# Ignore Videos. #
-##################
-*.mp4
-*.avi
-*.ogv
-*.mkv
-
-# Ignore OS-related #
-#####################
-.DS_Store
-
-# Specific to this project #
-############################
-build/
-out/
-cpp.sublime-workspace
-.vs/
-.vscode/
-.cache/
-
-# whitelist documentation
-!docs/**
-!misc/docs-hugo/**
+# Compiled source #
+###################
+*.com
+*.class
+*.exe
+*.o
+*.lo
+*.a
+*.lib
+*.la
+*.lai
+*.so
+*.dylib
+*.dll
+*.mex*
+*.pyc
+*.pyd
+*.pdb
+*.egg-info/
+
+# Packages #
+############
+# it's better to unpack these files and commit the raw source
+# git has its own built in compression methods
+*.7z
+*.dmg
+*.gz
+*.iso
+*.jar
+*.rar
+*.tar
+*.zip
+
+# Logs and databases #
+######################
+*.log
+*.sql
+*.sqlite
+
+# OS generated files #
+######################
+.DS_Store
+.DS_Store?
+._*
+.Spotlight-V100
+.Trashes
+ehthumbs.db
+Thumbs.db
+
+
+# Ignore .mat files. Git does not do well with big binary files. #
+##################################################################
+*.mat
+*.asv
+
+# Ignore TDT binary files. #
+############################
+*.sev
+*.Tbk
+*.Tdx
+*.tev
+*.tnt
+*.tsq
+
+# Ignore other binary/data files. #
+#############################
+*.dat
+*.bin
+*.kwik
+*.gsd
+*.ccf
+*.nev
+*.ns5
+*.h5
+
+# Ignore figures. #
+###################
+*.pdf
+*.svg
+*.eps
+*.png
+*.tif
+*.jpg
+
+# Ignore Videos. #
+##################
+*.mp4
+*.avi
+*.ogv
+*.mkv
+
+# Ignore OS-related #
+#####################
+.DS_Store
+
+# Specific to this project #
+############################
+build/
+out/
+**/Testing/**
+cpp.sublime-workspace
+.vs/
+.vscode/
+.cache/
+
+# whitelist documentation
+!docs/**
+!misc/docs-hugo/archetypes/**
+!misc/docs-hugo/content/**
+!misc/docs-hugo/resources/**
+!misc/docs-hugo/static/**
+# but not second built site--that's already in docs
+misc/docs-hugo/public/*

.gitmodules

@@ -2,3 +2,12 @@
 [submodule "misc/docs-hugo/themes/book"]
 	path = misc/docs-hugo/themes/book
 	url = https://github.com/alex-shpak/hugo-book
+[submodule "vcpkg"]
+	path = vcpkg
+	url = https://github.com/microsoft/vcpkg.git
+[submodule "python/pybind11"]
+	path = python/pybind11
+	url = https://github.com/pybind/pybind11.git
+[submodule "python/carma"]
+	path = python/carma
+	url = https://github.com/RUrlus/carma.git