--- name: "gamgi" section: "1" platform: "linux" package: "gamgi" version: "0.17.5-1" release: "Debian 12 (Bookworm)" platforms: ["linux"] url: "https://new.carta.tech/gamgi" --- # gamgi(1) general atomistic modelling graphic interface ## NAME gamgi - general atomistic modelling graphic interface ## SYNOPSIS **gamgi** **\[***file\_1.xml***\]** *...* **\[***file\_n.xml***\]** ## DESCRIPTION **gamgi** is a computer package to construct, view and analyse atomic structures. ## OPTIONS *file\_n.xml* is a fullname such as: ``` ../dat/molecule/flavors/garlic.xml ~/gamgi/dat/molecule/flavors/garlic.xml http://www.gamgi.org/dat/molecule/flavors/garlic.xml ftp://ftp.gamgi.org/gamgi/dat/molecule/flavors/garlic.xml ``` Object and config data can be mixed, so *file\_1.xml* might be a preferences file, loaded before the other object files. To automate the procedure, just add a line as this to *~/.bashrc*: - **alias gamgi='gamgi ~/gamgi/my\_defaults.xml'** ## ENVIRONMENT - **GAMGI\_HELP** Set this variable to let GAMGI know where the Help documentation files are. For example, add a line as this to *~/.bashrc* : - **GAMGI\_HELP=~/gamgi/gamgi/doc; export GAMGI\_HELP** - **GAMGI\_TEXT** Set this variable to let GAMGI know where are the .ttf DejaVu files, to render solid fonts. For example, add a line as this to *~/.bashrc*: - **GAMGI\_TEXT=~/gamgi/gamgi/src/io/fonts; export GAMGI\_TEXT** - **BROWSER** Set this variable to let GAMGI know which browser to launch, in case this is chosen to read Help. For example, add a line as this to *~/.bashrc*: - **BROWSER=firefox; export BROWSER** ## HELP Read introductory information with Help-\>Start. Browse the documentation at *http://www.gamgi.org/* or its local copy at *gamgi/doc/*. Use the help mechanisms reunited under the Help button. Subscribe the mailling list \. Contact the author at \. Throughout all interfaces and formats, lengths are in angstrom, angles in degrees and decimal numbers are represented with dots. Every parameter that can be defined in an interface can be also defined in a file and vice-versa. ## INTERFACES Rotate, move, scale the selected object pressing the left, middle, right mouse button. Export the selected object choosing File-\>Export. The statusbar shows the selected object (left) and layer (right). To select an object, choose Object-\>Select and press over the object. Or choose the object class on the menu above, with the middle button, before pressing on the object. Or press twice Layer, Window or GAMGI on the menu above. When the object has no visual representation, press the mouse over the graphic area, to pop up a menu. To select a layer, choose Layer-\>Select and press the mouse over the graphic area, to pop up a menu. Or choose the layer class on the menu above, with the middle button, before pressing the mouse over the graphic area, to pop up a menu. Solid objects usually require lights with diffuse and specular components to be properly represented in 3D space, otherwise they look flat. Wired objects do not have a 3D representation, so diffuse and specular lights are not reflected, becoming poorly visible when using lights, unless a significant ambient component is used. Often it is worth to draw solid and wired objects in different layers, with and without lights. When a task dialog is open, to learn how it works, just select Help-\>Current and another dialog will pop up, explaining the meaning of all the parameters in the task dialog. To see detailed explanations of GAMGI interfaces, consult the reference manual at *http://www.gamgi.org/interfaces/reference.html*, *doc/interfaces/reference.html* or Help-\>Topic-\>Interfaces. ## FORMATS GAMGI can import files in *.xyz* and *.xml* native format, selected automatically by the file extension. GAMGI can export files in *.ps*, *.ppm*, *.jp\[e\]g*, *.png*, *.tif\[f\]*, *.x3d* and native *.xml* formats, selected automatically by the file extension. In GAMGI native XML format, a water molecule can be described as: ``` ``` To see detailed explanations of GAMGI formats, consult the reference manual at *http://www.gamgi.org/formats/reference.html*, *doc/formats/reference.html* or Help-\>Topic-\>Formats. ## EXAMPLES Choose Help-\>Tutorials to get a list of fully described procedures, exemplifying most aspects of the work with GAMGI. ## SEE ALSO *http://www.gamgi.org/* ## AUTHOR Written by **Carlos Pereira** \, helped by **Steffen Moeller** \ and **Daniel Leidert** \, from the Debian project.