MarvinSketch can be customized to meet the needs of vastly different users.
As there are many different options, the customization process can get confusing. This section describes every option that affects the behavior of MarvinSketch in any way.
The table below lists all these options along with a short description and a link to the specific part of the MarvinSketch User's Guide that describes the option in detail. The table also provides information about where specific functions can be found on the GUI and which file is affected if an option is changed.
MarvinSketch stores all changes made on the GUI in various configuration files.
These files are located under one of the following folders:
C:\Documents and Settings\USERNAME on Windows and /home/USERNAME on Unix.
CHEMAXON_DIR is chemaxon on Windows and .chemaxon on Linux.
VERSION is the actual version number of MarvinSketch, with which the customization is made.
C:\Documents and Settings\USERNAME\chemaxon\18.24.0\customization.xml
|Name||Place on GUI||Short description||Associated sections||Associated files|
|Editor Style||View > Editor Style||There are three pre-defined styles in MarvinSketch. These are as follows:
It is possible to edit these pre-defined styles and export them as needed. It is also possible to import customized editor styles from XML or SER files. The following aspects are customizable:
|Configurations of MarvinSketch
|Hide/Show Status bars||View > Menu bar||The visibility of the Menu bar can be turned on or off.||Basic changes||Not persistent between sessions|
|Hide/Show Menu bars||View > Status bar||The visibility of the Status bar can be turned on or off.||Basic changes||Not persistent between sessions|
|Hide/Show Toolbars||View > Toolbars||In the case of the toolbar, the visibility of each toolbar can be specified individually.These toolbars are as follows:
|Look and Feel||From file only||The general look and feel can be changed by adding a line to the
||Changing the Default Look and Feel||
|Color of the Canvas||View > Colors > Background||The color of the canvas can be changed to a specific color. The default color is white.||View Menu||
|Color of the Canvas||View > Colors > White Background||Changes the color of the canvas to white.||View Menu||
|Color of the Canvas||View > Colors > Black Background||Changes the color of the canvas to black.||View Menu||
|Add Grid to the Canvas||View > Grid||Toggles the visibility of the grid.||View Menu||
|Add Guidelines to the Canvas||View > Guidelines||Toggles the visibility of the moveable guidelines.||View Menu||Not persistent between sessions|
|Multipage Settings||File > Multipage Settings||Creates a multipage molecular document that helps to work with large drawings by dividing them into pages.In the case of multipage documents, the following parameters can be specified:
||Multipage Documents||Not persistent between sessions|
|Document Style Settings||File > Document Style > Settings||By using this option, you can specify the font settings and size settings of the document.The Font Settings consist of the atom font style and atom font size options.Under Size Settings the following parameters are available:
||Customizing Structure Drawing Styles||
|Template Library||Edit > Template Library||Several pre-defined template groups are available in the Template Library. You can add entirely new groups to this list and modify the groups that are already added. To add a new group, click Add Template Set and specify the path of the file that contains the set.To remove a group, click Remove Template Set when a group is selected.You can easily reorder the groups with the up and down arrows. It is also possible to specify some Advanced Templates bar options, for example, the maximum number of buttons on the bar or the size of the buttons. When you switch to the Properties tab of a group you can specify whether the group is visible on the Advanced Templates bar or not.||Template Library Manager||
|My Templates||N/A||Any structure can be added to the user's template list. Simply select a structure and click Add to My Templates in the context menu.||Template Library Manager||
|Abbreviated Groups||N/A||You can create a
||Abbreviated (Superatom) Groups||
|Bond||Edit > Preferences||Bond-related behavior can be specified on this tab.||Bonds Tab||
|Structure||Edit > Preferences||Structure-related behavior can be specified on this tab.||Structure Tab||
|Text||Edit > Preferences||Text-related behavior can be specified on this tab.||Text Tab||
|Checkers||Edit > Preferences||Checker-related behavior can be specified on this tab.||Checkers Tab||
|Service||Edit > Preferences||Service-related behavior can be specified on this tab.||Services Tab||
|Save/load||Edit > Preferences||Save and load related behavior can be specified on this tab.||Save-Load Tab||
|3D Options||Edit > Preferences||3D-related behavior can be specified on this tab.||3D Options Tab||
|Analysis Box||Edit > Preferences||Analysis box related behavior can be specified on this tab.||Analysis Box Tab||
|Structure Display||View > Structure Display||The following structure display styles are available:
|Color Schemes||View > Colors||The following color schemes are available:
|Implicit Hydrogens||View > Implicit Hydrogens||The following display modes are available:
||Display Options for Implicit and Explicit Hydrogens||
|Peptide Display||View > Peptide Display||The following options are available:
|Atom Numbering||View > Advanced > Atom Numbering||The atom numbering scheme can be specified. The following options are available:
||View Menu||Not persistent between sessions|
|Atom Properties||View > Advanced > Atom Properties||Toggles the visibility of atom properties.||View Menu||Not persistent between sessions|
|Atom Mapping||View > Advanced > Atom Mapping||Toggles the visibility of atom mapping labels.||View Menu||Not persistent between sessions|
|Bond Lengths||View > Advanced > Bond Lengths||Toggles the display of bond lengths in Angstroms in the middle of the bonds.||View Menu||Not persistent between sessions|
|Lone Pairs||View > Advanced > Lone Pairs||Toggles the display of lone pairs.||View Menu||Not persistent between sessions|
|R-groups||View > Advanced > R-groups||Toggles the display of R-group definitions.||View Menu||Not persistent between sessions|
|R-Logic||View > Advanced > R-Logic||Toggles the display of R-logic definitions.||View Menu||
|Valence||View > Advanced > Valence||Toggles the display of valence numbers. The default setting is On.||View Menu||Not persistent between sessions|
|Ligand Error||View > Advanced > Ligand Error||Toggles the display of ligand errors. The default setting is On.||View Menu||Not persistent between sessions|
|S-group Attachments||View > Advanced > S-group Attachments||Toggles the display of the attachment points. The default setting is On.||View Menu||Not persistent between sessions|