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Merge pull request #263 from smathermather/publish
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README.md

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make livehtml
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```
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Note that if WebODM is running you should temporarily stop it while you edit the documentation.
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Note that if OpenDroneMap Desktop or another application is running on port 8000 you should temporarily stop it while you edit the documentation.
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## Step 5. Start Editing
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source/arguments_edit/auto-boundary.rst

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True: ``--auto-boundary``
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^^^^^^^^^^^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140864618-2a0c95f2-669e-45dc-b5c5-df82a555e4e5.webp
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:alt: WebODM displaying the reconstruction extent of a terrestrial orbit survey of a Northern Catalpa tree.
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:alt: displaying the reconstruction extent of a terrestrial orbit survey of a Northern Catalpa tree.
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The WebODM 3D View shows the full extent of the reconstruction, bounded by the ``--auto-boundary`` option.
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False: ``null``
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^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140864753-db3695c5-3ba2-48fb-a644-3e591913de72.webp
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:alt: WebODM displaying the reconstruction extent of a terrestrial orbit survey of a Northern Catalpa tree.
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The WebODM 3D View shows the full extent of the recosntruction. Compared to the ``--auto-boundary`` reconstruction above, one can see that the full reconstruction area is much larger (and therefore more visually sparse).

source/arguments_edit/boundary.rst

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.. figure:: https://user-images.githubusercontent.com/19295950/145103954-17ba7c31-fda6-4883-b7a6-3f0bacc266dd.webp
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:alt: Browser Download/Save file prompt for the generated GeoJSON file.
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Once the GeoJSON file has been chosen for saving, the browser will prompt you to save it to disk. Choose an appropriate location where you can access it at a later time to load into WebODM.
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Once the GeoJSON file has been chosen for saving, the browser will prompt you to save it to disk. Choose an appropriate location where you can access it at a later time to load into OpenDroneMap Desktop.
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Setting Boundary [GeoJSON] In Task Options
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"""""""""""""""""""""""""""""""""""""""""""
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Adding an Orthophoto Background
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""""""""""""""""""""""""""""""""
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.. figure:: https://user-images.githubusercontent.com/19295950/145109918-df591ce8-3df4-485d-a775-81813b7e61ef.webp
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:alt: Browsing to a generated Orthophoto from WebODM that covers the Area Of Interest (AOI).
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:alt: Browsing to a generated Orthophoto from OpenDroneMap Desktop that covers the Area Of Interest (AOI).
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If you have run the task already without a Boundary [GeoJSON], you can load the generated Orthophoto from OpenDroneMap into QGIS to use as your basemap for creating your Boundary [GeoJSON]. This should ensure that your boundary polygon exactly matches the data in your Task, as different basemaps can have errors of 1-10m or more.
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If have not generated an Orthophoto for your Area Of Interest (AOI), you can use one of the various methods within QGIS to add a basemap. Just be mindful of possible differences in location, angle, skew, scale, and other registration changes that can occur between your data and a basemap provider's data.
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True: ``--boundary [GeoJSON]`` - Point Cloud
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140858936-10fda65f-c278-46ae-95bd-7af8f8369554.webp
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:alt: WebODM displaying the "clipped" reconstruction of the Brighton Beach dataset Point Cloud.
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:alt: OpenDroneMap Desktop displaying the "clipped" reconstruction of the Brighton Beach dataset Point Cloud.
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The WebODM 3D View shows the modified extent of the reconstruction Point Cloud, bounded by the GeoJSON proivded to the ``--boundary`` option.
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The OpenDroneMap Desktop 3D View shows the modified extent of the reconstruction Point Cloud, bounded by the GeoJSON proivded to the ``--boundary`` option.
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True: ``--boundary [GeoJSON]`` - Orthophoto
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140859033-c6cab4f0-74b3-4266-b5ec-4a90da931340.webp
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:alt: WebODM displaying the "clipped" reconstruction of the Brighton Beach dataset Orthophoto.
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:alt: OpenDroneMap Desktop displaying the "clipped" reconstruction of the Brighton Beach dataset Orthophoto.
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The WebODM 3D View shows the modified extent of the reconstruction Orthophoto, bounded by the GeoJSON proivded to the ``--boundary`` option.
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The OpenDroneMap Desktop 3D View shows the modified extent of the reconstruction Orthophoto, bounded by the GeoJSON proivded to the ``--boundary`` option.
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True: ``--boundary [GeoJSON]`` - Digital Elevation Model
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140859073-28db5174-9a40-42d8-86d6-f345d9dad5a8.webp
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:alt: WebODM displaying the "clipped" reconstruction of the Brighton Beach dataset Digital Elevation Model.
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:alt: OpenDroneMap Desktop displaying the "clipped" reconstruction of the Brighton Beach dataset Digital Elevation Model.
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The WebODM 3D View shows the modified extent of the reconstruction Digital Elevation Model, bounded by the GeoJSON proivded to the ``--boundary`` option.
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The OpenDroneMap Desktop 3D View shows the modified extent of the reconstruction Digital Elevation Model, bounded by the GeoJSON proivded to the ``--boundary`` option.
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True: ``--boundary [GeoJSON]`` - 3D Model/Textured Mesh
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140859125-4854e651-9eff-430d-956c-16f4d9a52dfd.webp
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:alt: WebODM displaying the "clipped" reconstruction of the Brighton Beach dataset 3D Model/Textured Mesh.
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:alt: OpenDroneMap Desktop displaying the "clipped" reconstruction of the Brighton Beach dataset 3D Model/Textured Mesh.
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The WebODM 3D View shows the modified extent of the reconstruction 3D Model/Textured Mesh, bounded by the GeoJSON proivded to the ``--boundary`` option.
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The OpenDroneMap Desktop 3D View shows the modified extent of the reconstruction 3D Model/Textured Mesh, bounded by the GeoJSON proivded to the ``--boundary`` option.
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False: ``null``
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^^^^^^^^^^^^^^^^
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.. figure:: https://user-images.githubusercontent.com/19295950/140858712-9bfd8c56-a52a-480e-b68d-d5a97bc516fd.webp
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:alt: WebODM displaying the full reconstruction of the Brighton Beach dataset Point Cloud.
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:alt: OpenDroneMap Desktop displaying the full reconstruction of the Brighton Beach dataset Point Cloud.
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The WebODM 3D View shows the full extent of the recosntruction. Compared to the ``--boundary`` reconstruction above, one can see that the full reconstruction area is much larger and includes many features outside of the Area Of Interest used to generate the GeoJSON.
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The OpenDroneMap Desktop 3D View shows the full extent of the recosntruction. Compared to the ``--boundary`` reconstruction above, one can see that the full reconstruction area is much larger and includes many features outside of the Area Of Interest used to generate the GeoJSON.
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source/arguments_edit/build-overviews.rst

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----------------------------
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Overviews speed preview of the raster data by allowing the program rendering the raster to choose the closest size pyramid to match the resolution of the display extent that it is being rendered into, potentially saving a significant amount of time retrieving the full-size raster, buffering it, and then downscaling it for display.
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In the case of WebODM, Overviews are used to create dynamic tiles for rapid display and navigation of the 2D web map.
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In the case of OpenDroneMap Desktop, Overviews are used to create dynamic tiles for rapid display and navigation of the 2D web map.
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Example Images
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--------------

source/arguments_edit/cog.rst

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------------------------------------------
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Cloud Optimized GeoTIFFs (COGs hereafter) are a special formulation of GeoTIFF files that take advantage of internal overivews as well as tiling (and various forms of compression).
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In the case of WebODM, all GeoTIFFs will be generated as COGs because the 2D Map View uses the special attributes of COGs to enable rapid display and preview of the data generated by WebODM.
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In the case of OpenDroneMap Desktop, all GeoTIFFs will be generated as COGs because the 2D Map View uses the special attributes of COGs to enable rapid display and preview of the data generated by OpenDroneMap Desktop.
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When are COGs appropriate?
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---------------------------

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