File

The sub-menu File is shown on the left. It allows:




Open Reflections

Open a reflection file to set up the map

Open Model

Open a coordinates file

Open Map

Open a file containing a map

View Log

View the log produced by Jav.

Load Examples

Some examples are provided

Last Run

Recall the last run of Jav

Save Run

Save the actual run

Load Old Run

Restore a previous run

Screenshot

Produce an image file of Jav screen

Remove Map/Model

Remove from Jav map(s) or model(s)

Exit

Terminates the program






Open Reflections



It is possible to load reflections (to produce an electron density map) in different format: mtz, shelx, phs, free format. For each reflection the values of h, k, l, F, phase and weight are necessary.

Up to 5 maps are allowed (provided they have the same cell constants)


Open Model



It is possible to load the coordinates of a model  in different format: pdb, cif and shelx.

Up to 5 models are allowed (provided they have the same cell constants)


Open Map



It is possible to load map files in different format:CCP4/Xtal, XYZ, DMP.

Up to 5 maps are allowed (provided they have the same cell constants)


View Log


Log of the program is displayed.



Load examples


Two examples are provided: small molecule and protein.



Last Run, Save Run, Load Old Run


Recall the last run, save the actual run in a file (.jbk) and restore a previous run respectively.



Remove Map/Model


Jav is able to load up to 5 models and 5 maps  (provided they have the same cell constants), in order to load another model/map it is possible to remove some of them.





Exit


This is used to exit the program.


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