| version 1.9 | version 1.10 |
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| % | % |
| % $RCSfile: ug_colors.tex,v $ | % $RCSfile: ug_colors.tex,v $ |
| % $Author: mbach $ $Locker: $ $State: Exp $ | % $Author: mbach $ $Locker: $ $State: Exp $ |
| % $Revision: 1.9 $ $Date: 2002/10/18 16:31:04 $ | % $Revision: 1.10 $ $Date: 2002/10/25 16:59:26 $ |
| % | % |
| %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
| % DESCRIPTION: | % DESCRIPTION: |
| % User's guide: colors | % User's guide: colors |
| %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
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| \chapter{Molecule colors} | \section{Molecule colors} |
| \label{ug:topic:colordrawing} | |
| | |
| \JMV\ allows you to change the color gradient of the molecule. When selecting a color gradient, \JMV\ uses three colors, a beginning, middle, and end color. The gradient fades from the beginning to the middle, and then from the middle to the end color to create a smooth color gradient. The number of ``in-between'' colors for each gradient is determined by the number of items being colored. For example, if the molecule is colored by index, then each atom gets its own color. If the molecule is colored by residue, each residue type will get its own color. The representations ``Name'' and ``Structure'' have their own color schemes, and are not affected by the color gradients. | \JMV\ allows you to change the color gradient of the molecule. When selecting a color gradient, \JMV\ uses three colors, a beginning, middle, and end color. The gradient fades from the beginning to the middle, and then from the middle to the end color to create a smooth color gradient. The number of ``in-between'' colors for each gradient is determined by the number of items being colored. For example, if the molecule is colored by index, then each atom gets its own color. If the molecule is colored by residue, each residue type will get its own color. The representations ``Name'' and ``Structure'' have their own color schemes, and are not affected by the color gradients. |
| %%Please note that these changes are only applicable to PDB files, and will not affect VRML files. | %%Please note that these changes are only applicable to PDB files, and will not affect VRML files. |
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| BWR & Blue$\rightarrow$White$\rightarrow$Red\\ \hline | BWR & Blue$\rightarrow$White$\rightarrow$Red\\ \hline |
| BW & Black$\rightarrow$White\\ \hline | BW & Black$\rightarrow$White\\ \hline |
| WB & White$\rightarrow$Black\\ \hline | WB & White$\rightarrow$Black\\ \hline |
| Custom & The ``Custom...'' option allows users to create their own gradient\newline | Custom & See below.\\ \hline |
| by selecting a start, middle, and end color.\\ \hline | |
| \end{tabular} | \end{tabular} |
| \end{table} | \end{table} |
| When selecting the ``Custom'' option, a dialog box comes up presenting three buttons: ``Start color'', ``Middle color'', and ``End color''. Clicking on each of these buttons brings up a color-selection dialog, allowing the user to select a color in several ways, either from a table of colors, from a Hue-Saturation-Brightness (HSB) table, or by selecting values for the Red, Green, and Blue (RGB) components. When the user clicks ``OK'' in the color-selection dialog, the button in the original dialog box changes color to reflect the new choice. Clicking ``Change color'' in that dialog box then changes the gradient in the JMV window. | When selecting the ``Custom'' option, a dialog box comes up presenting three buttons: ``Start color'', ``Middle color'', and ``End color''. Clicking on each of these buttons brings up a color-selection dialog, allowing the user to select a color in several ways, either from a table of colors, from a Hue-Saturation-Brightness (HSB) table, or by selecting values for the Red, Green, and Blue (RGB) components. When the user clicks ``OK'' in the color-selection dialog, the button in the original dialog box changes color to reflect the new choice. Clicking ``Change color'' in that dialog box then changes the gradient in the JMV window. |