Mercurial > repos > bgruening > 3dtrees_potree
changeset 1:bd474d8124e3 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/3dtrees_potree commit b02bdb3361bc38ec2bc5efce09deed609eee26ba
| author | bgruening |
|---|---|
| date | Fri, 06 Feb 2026 10:16:06 +0000 |
| parents | 3104b1edd779 |
| children | |
| files | 3dtrees_potree.xml |
| diffstat | 1 files changed, 31 insertions(+), 18 deletions(-) [+] |
line wrap: on
line diff
--- a/3dtrees_potree.xml Tue Feb 03 19:08:35 2026 +0000 +++ b/3dtrees_potree.xml Fri Feb 06 10:16:06 2026 +0000 @@ -2,7 +2,7 @@ <description>Convert LAS/LAZ point clouds to Potree octree format for web visualization</description> <macros> <token name="@TOOL_VERSION@">1.0.0</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> </macros> <requirements> <container type="docker">ghcr.io/3dtrees-earth/3dtrees_potree:@TOOL_VERSION@</container> @@ -23,14 +23,23 @@ $keep_chunks $no_chunking $no_indexing + $generate_page #if $generate_page - --generate-page '$generate_page' + && + + ## Setup HTML with extra files for Galaxy viewing + cp output/potree-vis.html '$viewer_html' && + mkdir -p '$viewer_html.files_path' && + cp -r /opt/PotreeConverter/resources/page_template/libs '$viewer_html.files_path/' && + cp -r output/pointclouds '$viewer_html.files_path/' && + chmod -R a+rX '$viewer_html.files_path' #end if 2>&1 ]]> </command> <inputs> <param name="input" type="data" format="laz" multiple="true" label="Point Cloud Files" help="Input LAS/LAZ files to convert to Potree format" /> + <param argument="--generate-page" type="boolean" truevalue="-p potree-vis" falsevalue="" checked="false" label="Generate interactive Viewer" help="Generate a ready-to-use HTML viewer page for in-Galaxy visualization" /> <param argument="--encoding" type="select" label="Encoding" help="Compression encoding for output"> <option value="BROTLI" selected="true">Brotli</option> <option value="UNCOMPRESSED">Uncompressed</option> @@ -46,25 +55,32 @@ <param argument="--keep-chunks" type="boolean" truevalue="--keep-chunks" falsevalue="" checked="false" label="Keep Chunks" help="Skip deleting temporary chunks during conversion" /> <param argument="--no-chunking" type="boolean" truevalue="--no-chunking" falsevalue="" checked="false" label="No Chunking" help="Disable chunking phase" /> <param argument="--no-indexing" type="boolean" truevalue="--no-indexing" falsevalue="" checked="false" label="No Indexing" help="Disable indexing phase" /> - <param name="generate_page" type="text" optional="true" label="Generate Page" help="Generate a ready-to-use web page with the given name (e.g., 'viewer'). Leave empty to skip page generation."> - <validator type="regex" message="Only letters are allowed">^[a-zA-Z,]</validator> - </param> </inputs> <outputs> + <!-- HTML viewer for in-Galaxy viewing (when generate_page is specified) --> + <data name="viewer_html" format="html" label="Potree Visualization"> + <filter>generate_page</filter> + </data> <!-- Collection output - discovers files in output directory --> <collection name="potree_output" type="list" label="Potree Output"> <discover_datasets pattern="(?P<designation>metadata)\.json$" directory="output" format="json" recurse="true"/> <discover_datasets pattern="(?P<designation>hierarchy)\.bin$" directory="output" format="binary" recurse="true"/> <discover_datasets pattern="(?P<designation>octree)\.bin$" directory="output" format="binary" recurse="true"/> <discover_datasets pattern="(?P<designation>log)\.txt$" directory="output" format="txt" recurse="true"/> - <discover_datasets pattern="(?P<designation>.+)\.html$" directory="output" format="html"/> </collection> </outputs> <tests> - <test expect_num_outputs="1"> + <test expect_num_outputs="2"> <param name="input" value="mikro.laz" ftype="laz"/> - <param name="generate_page" value="test"/> - <output_collection name="potree_output" type="list" count="5"> + <param name="generate_page" value="true"/> + <!-- HTML viewer for Galaxy --> + <output name="viewer_html" ftype="html"> + <assert_contents> + <has_text text='Potree.loadPointCloud("./pointclouds/potree-vis/metadata.json", "potree-vis"'/> + </assert_contents> + </output> + <!-- Collection output for octree data --> + <output_collection name="potree_output" type="list" count="4"> <element name="metadata" ftype="json"> <assert_contents> <has_json_property_with_value property="points" value="12917" /> @@ -85,11 +101,6 @@ <has_text text="counting mikro.laz"/> </assert_contents> </element> - <element name="test" ftype="html"> - <assert_contents> - <has_text text='Potree.loadPointCloud("./pointclouds/test/metadata.json", "test"'/> - </assert_contents> - </element> </output_collection> </test> </tests> @@ -133,17 +144,19 @@ When **Generate Page** is specified (e.g., "viewer"): -- **{name}** (HTML): Ready-to-use HTML page for visualizing the point cloud +- **{name} Potree Viewer** (HTML): Interactive viewer that can be viewed directly in Galaxy + - Note: This tool is meant for visualization - other tools (eg. measurements, camera) may not work properly + - Includes libs/ and pointclouds/ as extra files -Note: The libs/ folder required for the web viewer is not included in outputs. -For production use, get the Potree libraries from: https://github.com/potree/potree/tree/develop/libs +- **{name} Potree Viewer Package (Download)** (ZIP): Self-contained package for local use + - Download, extract, and open files in PotreeViewer. ----- **Workflow Integration** This tool converts point cloud data to an optimized web visualization format using PotreeConverter's octree algorithm. -The output can be served via a web server and visualized using the Potree viewer. +The output can be downloaded and visualized using the Potree viewer. </help> <creator>