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Merge pull request #6 in UPSP/upsp-proc from development to master
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Squashed commit of the following:

commit 3263811
Merge: a71db42 608ad21
Author: Shaw-Lecerf, Marc (ARC-AOX) <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Jan 12 11:24:31 2023 -0800

    Merge pull request #5 in UPSP/upsp-proc from UPSP-704 to development

    * commit '608ad219c3a90f272889a80e6a4662602ad5be62':
      UPSP-704: Fix equation references
      UPSP-704: Make flowcharts clickable to see full size
      UPSP-704: Fix up doc string formatting following merge
      UPSP-704: PR comment np.float -> float
      Added input check to external_calibrate_two_stage_from_wtd
      UPSP-704: excal fix (read_json->read_test_config)
      UPSP-704: author -> authors bugfix
      UPSP-704: Added .flake8
      UPSP-704: Sphinx docs: index.rst *.mov -> *.png
      UPSP-704: Sphinx docs: sphinx.ext.viewcode
      UPSP-704: Docstring fixups
      Sphinx docs updates
      Sphinx docs updates
      Sphinx docs updates
      Sphinx docs updates
      Sphinx docs updates
      Sphinx doc updates
      current documentation MD -> RST (w/ pandoc)
      Ported krlyons initial sphinx doc build system

commit 608ad21
Author: Kenneth Lyons <kenneth.r.lyons@nasa.gov>
Date:   Thu Jan 12 10:07:36 2023 -0800

    UPSP-704: Fix equation references

commit 26e4ac5
Author: Kenneth Lyons <kenneth.r.lyons@nasa.gov>
Date:   Thu Jan 12 10:07:04 2023 -0800

    UPSP-704: Make flowcharts clickable to see full size

commit 2a851ab
Author: Kenneth Lyons <kenneth.r.lyons@nasa.gov>
Date:   Thu Jan 12 09:49:45 2023 -0800

    UPSP-704: Fix up doc string formatting following merge

commit eba274a
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Jan 10 17:26:31 2023 -0800

    UPSP-704: PR comment np.float -> float

commit 0df9afd
Author: Nicholas Califano <ncalifan@pfe22.nas.nasa.gov>
Date:   Tue Jan 10 14:55:42 2023 -0800

    Added input check to external_calibrate_two_stage_from_wtd

commit bd18d77
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Jan 10 09:08:24 2023 -0800

    UPSP-704: excal fix (read_json->read_test_config)

commit ecf8bba
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 20:18:44 2023 -0500

    UPSP-704: author -> authors bugfix

commit 2e8cbd3
Merge: f591145 a71db42
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 16:36:21 2023 -0500

    Merge branch 'development' into UPSP-704

     Conflicts:
    	python/upsp/cam_cal_utils/photogrammetry.py
    	python/upsp/cam_cal_utils/visibility.py

commit a71db42
Merge: e1512a1 0056c6c
Author: Shaw-Lecerf, Marc (ARC-AOX) <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 13:03:21 2023 -0800

    Merge pull request #3 in UPSP/upsp-proc from UPSP-851 to development

    * commit '0056c6ccce768d4c361c82d1ffd22ca3a0801680':
      UPSP-851: update .gitignore
      UPSP-851: address PR comments
      UPSP-853: batch processing: archive src JSONs
      UPSP-852: deprecate unity demo app utilities
      Batch processing updates for pip pkg
      Migrate deps from setup.py -> pyproject.toml
      Add setuputils_scm to build sys; add LICENSE.txt

commit 0056c6c
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 13:00:09 2023 -0800

    UPSP-851: update .gitignore

commit 51736bc
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 12:58:28 2023 -0800

    UPSP-851: address PR comments

commit 61cb109
Merge: 43cc47a e1512a1
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 10:54:14 2023 -0800

    Merge branch 'development' into UPSP-851

commit f591145
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 13:25:23 2023 -0500

    UPSP-704: Added .flake8

commit 4e2dde7
Merge: a9d4f1b e1512a1
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Jan 9 12:43:56 2023 -0500

    Merge branch 'development' into UPSP-704

     Conflicts:
    	python/upsp/cam_cal_utils/camera_tunnel_calibrate.py
    	python/upsp/cam_cal_utils/external_calibrate.py
    	python/upsp/cam_cal_utils/img_utils.py
    	python/upsp/cam_cal_utils/internal_calibration.py
    	python/upsp/cam_cal_utils/parsers.py
    	python/upsp/cam_cal_utils/photogrammetry.py
    	python/upsp/cam_cal_utils/target_bumping.py
    	python/upsp/cam_cal_utils/visibility.py
    	python/upsp/intensity_mapping/node_pixel_mapping.py
    	python/upsp/intensity_mapping/patching.py
    	python/upsp/target_localization/gaussian_fitting_methods.py

commit e1512a1
Merge: f2ed962 748f924
Author: Califano, Nicholas W. (ARC-AOX)[Metis Technology Solutions] <nicholas.w.califano@nasa.gov>
Date:   Thu Jan 5 16:44:16 2023 -0800

    Merge pull request #4 in UPSP/upsp-proc from UPSP-856 to development

    * commit '748f9240c90da31ae859a2fee73a59f07e1ea488':
      Copied changes from main upsp repo

commit 748f924
Author: Nicholas Califano <ncalifan@pfe23.nas.nasa.gov>
Date:   Wed Jan 4 12:05:21 2023 -0800

    Copied changes from main upsp repo

commit a9d4f1b
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Dec 22 14:00:41 2022 -0500

    UPSP-704: Sphinx docs: index.rst *.mov -> *.png

    Video isn't working reliably. Readers are provided with
    a hyperlink to download the video, and a screenshot is used
    instead in the HTML docs.

commit 95f6a28
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Dec 22 13:51:28 2022 -0500

    UPSP-704: Sphinx docs: sphinx.ext.viewcode

commit 07ac35d
Author: Kenneth Lyons <kenneth.r.lyons@nasa.gov>
Date:   Thu Dec 22 10:27:01 2022 -0800

    UPSP-704: Docstring fixups

    - Make all docstrings numpydoc style compliant
    - Use type preprocessing and intersphinx
    - Make references work

commit 43cc47a
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Dec 20 07:44:44 2022 -0800

    UPSP-853: batch processing: archive src JSONs

    Copy the original, user-provided JSON files to
    02_configuration folder. This is a good practice to
    improve repeatability, it's easy to lose track of them
    otherwise.

commit cb052d3
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Dec 20 06:05:09 2022 -0800

    UPSP-852: deprecate unity demo app utilities

commit 1cd8bd1
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Dec 19 12:12:47 2022 -0800

    Batch processing updates for pip pkg

    - hard dep on opencv-python-headless=4.5.2.54
      (some function signature changes w/ 4.6.0 we haven't
      updated yet)

    - remove some autogenerated scripts from batch processing
      - run-unity-export: may deprecate this in the future
      - step+render_images: does not currently work as we
        removed the miniwall.py (demo code) interface. Need
        to rewrite this step, maybe make use of the PyTecplot
        API

commit d07452b
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Dec 19 10:45:47 2022 -0800

    Migrate deps from setup.py -> pyproject.toml

    - Requires setuputils >= 61 bump
    - Made this change due to warning when running "pip wheel"
      after migrating other stuff to the pyproject.toml.

commit 70bcf3e
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Mon Dec 19 10:39:57 2022 -0800

    Add setuputils_scm to build sys; add LICENSE.txt

    Latest usage of setuputils_scm relies on the pyproject.toml,
    which encouraged me to migrate some other pkg metadata like
    the project name + description.

    Also added the license file (NOSA 1.3).

commit e819bf9
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Sat Dec 17 01:46:55 2022 -0500

    Sphinx docs updates

    Embedded video of SLS AUAT pressure time history animation
    (from public NTRS archive, https://ntrs.nasa.gov/citations/20220005639).

    The NTRS entry has a *.pptx file available for download. The
    embedded video is loaded by a simple Javascript that grabs the
    PPT file, extracts it (*.pptx is essentially just a ZIP file),
    grabs the *.mov file out of the file tree, and loads it into
    an HTML <video> element. This is embedded in an <iframe> in the
    Sphinx documentation. A bit hacky but looks pretty decent on my
    system.

    (NOTE: does not load on Safari, but works on Chrome and Firefox).
    (Maybe we should just display a still image if the video fails
    to load ... need to update the JS to do that)

commit a941313
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Fri Dec 16 17:18:21 2022 -0500

    Sphinx docs updates

    - Added refs.bib, sphinxcontrib bibliography
    - Split out more pages from user-manual

commit 9565b2a
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Fri Dec 16 16:35:17 2022 -0500

    Sphinx docs updates

    Quick Start migrated to its own section + heavy updates
    Terminology own section
    Installation own section + cleanup

commit e644024
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Fri Dec 16 09:27:43 2022 -0500

    Sphinx docs updates

    - file-formats.rst
      - converted grid- to list-table
      - significant cleanup of hyperlinks, verbiage
      - made some stuff more "public-friendly" (eg a
        bit more context in the WTD file description,
        link to public UPWT docs on nasa.gov)

commit 5c67816
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Dec 15 19:58:04 2022 -0500

    Sphinx docs updates

    - autosectionlabel extension
    - cleanup swdd.rst cross-refs
    - spellcheck + grammar

commit f2ed962
Merge: 6cddf00 70ee462
Author: Shaw-Lecerf, Marc (ARC-AOX) <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Dec 15 16:46:24 2022 -0800

    Merge pull request #2 in UPSP/upsp-proc from UPSP-848 to development

    * commit '70ee462bc7dce75bb1e44a8730bde31b536b7eea':
      scikit-build updates. Works after some RPATH hacks
      Ported over krlyons initial skbuild impl

commit 99d5ad4
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Dec 13 16:49:10 2022 -0500

    Sphinx doc updates

commit ec2ca31
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Dec 13 10:26:31 2022 -0500

    current documentation MD -> RST (w/ pandoc)

commit f60442d
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Tue Dec 13 09:42:48 2022 -0500

    Ported krlyons initial sphinx doc build system

commit 70ee462
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Dec 15 12:25:13 2022 -0800

    scikit-build updates. Works after some RPATH hacks

commit 77491b3
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Fri Dec 9 14:56:46 2022 -0500

    Ported over krlyons initial skbuild impl

commit 6cddf00
Merge: 10c8f1c ee84c74
Author: Shaw-Lecerf, Marc (ARC-AOX) <marc.a.shaw-lecerf@nasa.gov>
Date:   Wed Oct 26 12:32:55 2022 -0700

    Merge pull request #1 in UPSP/upsp-proc from UPSP-842 to development

    * commit 'ee84c74e50ba605f66a18902904512bf45534545':
      UPSP-842: Update INSTALL tgt (missing *.py files)

commit ee84c74
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Wed Oct 26 11:43:35 2022 -0700

    UPSP-842: Update INSTALL tgt (missing *.py files)

commit 10c8f1c
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Fri Oct 7 17:32:10 2022 -0700

    Migrated second round of camera-to-tunnel updates

commit e381963
Author: Marc Shaw-Lecerf <marc.a.shaw-lecerf@nasa.gov>
Date:   Thu Aug 18 10:47:59 2022 -0700

    Migrated latest camera/tunnel calibration changes

    SHA e5ef37c74fa
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marclecerf committed Jan 12, 2023
1 parent db24876 commit a914006
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Showing 54 changed files with 7,966 additions and 3,297 deletions.
2 changes: 2 additions & 0 deletions .flake8
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Original file line number Diff line number Diff line change
@@ -0,0 +1,2 @@
[flake8]
max-line-length = 88
4 changes: 4 additions & 0 deletions .gitignore
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Original file line number Diff line number Diff line change
Expand Up @@ -2,3 +2,7 @@ __pycache__
*.pyc
*.egg-info

# scikit-build artifacts
_skbuild/
python/upsp/_version.py

264 changes: 54 additions & 210 deletions CMakeLists.txt
View file
Original file line number Diff line number Diff line change
Expand Up @@ -2,20 +2,50 @@ cmake_minimum_required(VERSION 3.20)
project(upsp)
cmake_policy(SET CMP0074 NEW)

list(APPEND CMAKE_MODULE_PATH "${CMAKE_SOURCE_DIR}/cmake/Modules")

set(CMAKE_INSTALL_RPATH "${CMAKE_INSTALL_PREFIX}/lib")
set(CMAKE_INSTALL_RPATH_USE_LINK_PATH True)
set(CMAKE_CXX_STANDARD 17)
set(CMAKE_CXX_STANDARD_REQUIRED ON)
set(CMAKE_POSITION_INDEPENDENT_CODE ON)

# Direct inclusion of open-source tools for
# integrating pandoc w/ CMake, copied into cmake/Modules. Ref:
# https://github.com/jeetsukumaran/cmake-pandocology/
# (SHA: 10900f9aec4431b504fa8979576f950533cf20d9)
include(pandocology)
list(APPEND CMAKE_MODULE_PATH "${CMAKE_SOURCE_DIR}/cmake/Modules")

# This ensures any link paths used at build time are preserved in
# the installed targets. This supports cases where the user has
# supplied third-party libraries in non-system locations (for
# instance, if making use of a local vcpkg setup)
set(CMAKE_INSTALL_RPATH_USE_LINK_PATH TRUE)
set(CMAKE_SKIP_BUILD_RPATH FALSE)

if (DEFINED SKBUILD)
# prevent an unused variable warning
set(ignoreMe "${SKBUILD}")

# TODO this is ugly but it works for now.
#
# When the project is built by scikit-build for deployment as a
# Python package, libraries are dropped in the lib/ folder and there's
# multiple consumers of those libraries that need to resolve them at runtime:
#
# - Executables, installed to bin/, need to look in $ORIGIN/../lib
# - Python extension modules, installed to lib/pythonX/site-packages/upsp,
# need to look in $ORIGIN/../../..
#
# Lastly, there's some build-tree-only artifacts (eg gtest unit tests),
# those need to look in their own build directory ($ORIGIN).
#
# We could do this on a per-target basis but I'd rather just leave
# the hack in one spot for now instead of being peppered all over
# this build file.
#
# A "better/cleaner" example of this setup can be found here (although
# I don't think it handles all the use cases I listed above, it's
# a small sample project):
#
# https://github.com/scikit-build/scikit-build-sample-projects/blob/master/projects/hello-cmake-package/CMakeLists.txt#L92
#
set(CMAKE_BUILD_WITH_INSTALL_RPATH TRUE)
set(CMAKE_INSTALL_RPATH "\$ORIGIN:\$ORIGIN/../lib:\$ORIGIN/../../../")
endif()

find_package(Eigen3 CONFIG REQUIRED)
find_package(Boost REQUIRED)
find_package(OpenCV CONFIG REQUIRED COMPONENTS core imgproc imgcodecs calib3d videoio tracking)
Expand All @@ -26,14 +56,16 @@ find_package(pybind11 REQUIRED)
find_library(LIBRT rt)
find_package(hdf5 CONFIG REQUIRED)
find_package(IlmBase CONFIG REQUIRED)
find_package(PythonExtensions)

include_directories(cpp/include)

pybind11_add_module(cine cpp/pybind11/cine.cpp)
target_link_libraries(cine PRIVATE upsp_video)

pybind11_add_module(raycast cpp/pybind11/raycast.cpp)
target_link_libraries(raycast PRIVATE upsp_kdtree)

include_directories(cpp/include)

add_library(
upsp_video
SHARED
Expand Down Expand Up @@ -121,9 +153,6 @@ add_executable(upsp_matrix_transpose cpp/exec/upsp_matrix_transpose.cpp)
target_link_libraries(upsp_matrix_transpose MPI::MPI_CXX)
target_link_libraries(upsp_matrix_transpose OpenMP::OpenMP_CXX)


# GTest::gmock GTest::gtest GTest::gmock_main GTest::gtest_main
# TODO could automate smoke tests and gtest unit tests leveraging CTest
find_package(GTest CONFIG REQUIRED)
upsp_add_executable(
run_tests
Expand All @@ -143,91 +172,6 @@ target_link_libraries(run_tests GTest::gtest GTest::gtest_main)
target_link_libraries(run_tests OpenMP::OpenMP_CXX)
target_link_libraries(run_tests hdf5::hdf5_cpp-shared hdf5::hdf5_hl_cpp-shared)

# Documentation (custom cmake macros from pandocology)
# NOTE: pandoc options ref: https://pandoc.org/MANUAL.html
string(TIMESTAMP TODAY "%Y-%m-%d")
function(upsp_add_document TARGET FILENAME)
list(APPEND UPSP_ADD_DOCUMENT_TARGETS ${TARGET})
set(UPSP_ADD_DOCUMENT_TARGETS ${UPSP_ADD_DOCUMENT_TARGETS} PARENT_SCOPE)
get_filename_component(BASENAME_WE ${FILENAME} NAME_WE)
add_document(
TARGET ${TARGET}_docx
OUTPUT_FILE ${BASENAME_WE}.docx
SOURCES ${FILENAME}
RESOURCE_DIRS docs/md/static
PANDOC_DIRECTIVES --to docx
--from markdown+pandoc_title_block+table_captions+simple_tables+yaml_metadata_block
--filter pandoc-xnos
--mathjax
--standalone
--toc
--number-sections
--metadata date=${TODAY}
NO_EXPORT_PRODUCT
)

add_document(
TARGET ${TARGET}_html
OUTPUT_FILE ${BASENAME_WE}.html
SOURCES ${FILENAME}
RESOURCE_DIRS docs/md/static
PANDOC_DIRECTIVES --to html
--from markdown+pandoc_title_block+table_captions+simple_tables+yaml_metadata_block
--filter pandoc-xnos
--mathjax
--standalone
--toc
--number-sections
--metadata date=${TODAY}
-c static/upsp-styles.css
-A static/upsp-footer.html
NO_EXPORT_PRODUCT
)

add_dependencies(${TARGET}_html ${TARGET}_docx)
endfunction()

function(upsp_serialize_document_depends)
list(LENGTH UPSP_ADD_DOCUMENT_TARGETS NUMBER_TARGETS)
if (${NUMBER_TARGETS} LESS_EQUAL 1)
return()
endif()
math(EXPR START "1")
math(EXPR STOP "${NUMBER_TARGETS} - 1")
foreach(THIS_IDX RANGE ${START} ${STOP})
math(EXPR PREV_IDX "${THIS_IDX} - 1")
list(GET UPSP_ADD_DOCUMENT_TARGETS ${THIS_IDX} THIS_TGT)
list(GET UPSP_ADD_DOCUMENT_TARGETS ${PREV_IDX} PREV_TGT)
add_dependencies(${THIS_TGT}_docx ${PREV_TGT}_html)
endforeach()
endfunction()

upsp_add_document(upsp_user_manual docs/md/upsp-user-manual.md)
upsp_add_document(upsp_swdd docs/md/upsp-swdd.md)
upsp_add_document(upsp_third_party_dependencies docs/md/upsp-third-party-dependencies.md)
upsp_serialize_document_depends()

# INSTALLATION TARGETS

# Documentation install targets
# A bit hacky but it works. Grab outputs from the build directory
# after pandoc has been run (pandoc configured by the various
# cmake pandocology macros) and copy them "by hand" to install location.
install(
FILES
${CMAKE_CURRENT_BINARY_DIR}/upsp-swdd.docx
${CMAKE_CURRENT_BINARY_DIR}/upsp-swdd.html
${CMAKE_CURRENT_BINARY_DIR}/upsp-third-party-dependencies.docx
${CMAKE_CURRENT_BINARY_DIR}/upsp-third-party-dependencies.html
${CMAKE_CURRENT_BINARY_DIR}/upsp-user-manual.docx
${CMAKE_CURRENT_BINARY_DIR}/upsp-user-manual.html
DESTINATION docs
)
install(
DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/static
DESTINATION docs
)

install(
TARGETS
add_field
Expand All @@ -248,120 +192,20 @@ install(
scripts/upsp-make-processing-tree
scripts/upsp-kulite-comparison
scripts/upsp-plotting
scripts/upsp-unity-export
scripts/upsp-qsub-args
DESTINATION
bin
)

# Python install process could be a bit cleaner.
# - Ideally we would make use of setuputils.
# - However, there are a couple modules built with
# pybind11 (e.g., raycast.so) that rely on other
# solibs built by the project. If a user wants
# to import them in Python, then either
# a) raycast.so has to have its RPATH populated with
# the path to the folder containing the solib
# dependencies, or
# b) the user has to have their LD_LIBRARY_PATH set.
# Clearly, option (a) is preferred for Python
# development, and option (b) is an annoying
# workaround.
# - By using the CMake install() command on the pybind11
# CMake targets, their RPATH's are updated correctly
# so option (a) works. However, this precludes using
# setuputils.
# - There is probably a way to configure CMake via
# setuputils calls to properly replicate the behavior
# but I haven't figured it out yet.
install(TARGETS cine raycast LIBRARY DESTINATION python/upsp)

# The rest of the non-pybind11 Python modules are then
# just manually copied here. We explicitly list out all files
# for safety (in general, globs in build scripts aren't best
# practice).
# TODO I think this works in a fairly brittle fashion right now.
# It just so happens that the cmake_install_dir staging directory
# created by scikit-build has a "python/upsp" folder mimicking the
# source tree layout... so these extensions are just "dropped" into the
# right spot. There's probably a more robust way to specify their
# install location, probably some CMAKE_ variable I'm ignorant of.
install(
FILES
python/upsp/__init__.py
DESTINATION
python/upsp
)

install(
FILES
python/upsp/processing/context.py
python/upsp/processing/grids.py
python/upsp/processing/io.py
python/upsp/processing/kulite_processing.py
python/upsp/processing/kulite_utilities.py
python/upsp/processing/p3d_conversions.py
python/upsp/processing/p3d_utilities.py
python/upsp/processing/plot3d.py
python/upsp/processing/tree.py
python/upsp/processing/unity_conversions.py
DESTINATION
python/upsp/processing
)

install(
FILES
python/upsp/cam_cal_utils/external_calibrate.py
python/upsp/cam_cal_utils/img_utils.py
python/upsp/cam_cal_utils/parsers.py
python/upsp/cam_cal_utils/photogrammetry.py
python/upsp/cam_cal_utils/target_bumping.py
python/upsp/cam_cal_utils/visibility.py
python/upsp/cam_cal_utils/visualization.py
DESTINATION
python/upsp/cam_cal_utils
)

install(
FILES
python/upsp/target_localization/blob_detector_methods.py
python/upsp/target_localization/gaussian_fitting_methods.py
DESTINATION
python/upsp/target_localization
)

install(
FILES
python/upsp/kulite_comparison/plotting.py
python/upsp/kulite_comparison/selection.py
python/upsp/kulite_comparison/spatial_queries.py
DESTINATION
python/upsp/kulite_comparison
)

install(
FILES
python/upsp/processing/templates/add-field.sh.template
python/upsp/processing/templates/gltf-viewer.html.template
python/upsp/processing/templates/launcher.sh.template
python/upsp/processing/templates/run-step-parallel.sh.template
python/upsp/processing/templates/run-step-serial.sh.template
DESTINATION
python/upsp/processing/templates
)

# Define the two required variables before including
# the source code for watching a git repository.
set(PRE_CONFIGURE_FILE "scripts/version")
set(POST_CONFIGURE_FILE "${CMAKE_BINARY_DIR}/version")
include(cmake/git_watcher.cmake)

install(
PROGRAMS
${CMAKE_BINARY_DIR}/version
DESTINATION
${CMAKE_INSTALL_PREFIX}
)

install(
FILES
scripts/activate.sh
scripts/activate.csh
RELEASE.md
DESTINATION
${CMAKE_INSTALL_PREFIX}
TARGETS
cine
raycast
LIBRARY DESTINATION python/upsp
)

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