/usr/share/app-install/desktop/ncbi-tools-x11:Cn3D-3.0.desktop is in app-install-data 15.10.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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X-AppInstall-Package=ncbi-tools-x11
X-AppInstall-Popcon=51
X-AppInstall-Section=universe
Version=1.0
Name=Cn3D NCBI Database Viewer
GenericName=Database Viewer
Comment=View NCBI databases in 3D
Type=Application
Exec=Cn3D-3.0
Icon=ncbilogo
Categories=Education;Science;Biology;
X-Ubuntu-Gettext-Domain=app-install-data
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