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2020/2/22 Hackathon wrap-up
Tomoki Kazawa@CNS-PF committee
cns.neuroinf.jphttps://invbrain.neuroinf.jp/
Two topics about improvement of 3D
3D web viewer
Ontology integration
Two topics about improvement of 3D
3D web viewer
Ontology integration
What is Standard 3D viewer and its GUI manipulations ?
• Survey of Standard 3D view
• Yokota G• Blender• Meshlab
• WE use ParaviewAmira/AvizoneuTube
Web based
From OkumuraRii-mango/Papayahttp://api.goxtk.com/
We build X3d dom 3D viewer
From TanakaThree.jshttps://aframe.io/
Paraview mouse manipulation (surveyed by Sakai)
http://www.mech.iwate-u.ac.jp/~hirose/ockitatohoku/ref/nakayamasama-paraview.pdf
Our 3D viewer
https://cns.neuroinf.jp/modules/pico/index.php?content_id=11&ml_lang=en
https://cns.neuroinf.jp/modules/pico/index.php?content_id=12
https://cns.neuroinf.jp/modules/pico/index.php?content_id=11&ml_lang=en
https://cns.neuroinf.jp/modules/pico/index.php?content_id=12
https://cns.neuroinf.jp/x3d/show_cns.php?file_id=18010&fullscreen=1
BugbFix byOkumura 2/21
Plan
• GUI and key binding will be modified to a faily common interface.
• View from Infinity distance
• Scale bard
• Viewer for two objects each volume scale is extremely different ( ex. insect and wheel
• )
Two topics about improvement of 3D
3D web viewer
Ontology integration
Our database contents
• My plan• Integrate meta data and the information in the document using
Semantic media wiki and intoroducing some OWLs (species and anatomy)
• What I did• Build a server in LAN (centos7.6 Apache 2.4 mySQL5.7 Media wiki
1.34)• A trouble with Composer (PHP) prevent to build Semantic media
wiki 1.33)
• Drosophila Anatomy Ontology (DAO)in mainteined as Drosophila anatomy and development ontologies
• https://github.com/FlyBase/drosophila-anatomy-developmental-ontology/wiki
• Parts of Table S1. Neuropil supercategories (level 1) were used
•
• OL optic lobe
• MB mushroom body
• CX central complex
• LX lateral complex
• VLNP ventrolateral neuropils
• LH lateral horn
• SNP superior neuropils
• INP inferior neuropils
• AL antennal lobe
• VMNP ventromedial neuropils
• PENP periesophageal neuropils
• GNG gnathal ganglia
Existing databases in IVB-PF
Make link and keyword pages in mediawikiMaking categories
Wiki for metadata integration
Previous work: Most of data descricption and keyword information were copied into media-wiki
Our data with meta metadatas