Marvin modules
A modules is a set of class files that is packed in a separate jar (not in
the core jmarvin.jar).
Marvin modules are downloaded at runtime, only as needed.
| Module name | Jar file | Description |
|---|---|---|
| AbbrevGroupExport | sjars/abbrevgroupexport.jar | Abbreviated group export. |
| AtomIndexLabeller | sjars/atomlabellers.jar | Atom index, displayed as a label. |
| Base64Export | sjars/base64export.jar | Base64 export. |
| Base64Import | sjars/base64import.jar | Base64 import. |
| Clean2D | sjars/clean2d.jar | 2D cleaning. |
| Clean3D | sjars/clean3d.jar | 3D cleaning. |
| CmlExport | sjars/cmlexport.jar | CML export |
| CmlImport | sjars/cmlimport.jar | CML import |
| CxsmilesImport | sjars/smilesimport.jar | ChemAxon Extended SMILES/SMARTS import. |
| Dearomata | sjars/dearomata.jar | Dearomatization. |
| DocumentSettings | sjars/documenthandling.jar | Document settings. |
| GzipExport | sjars/gzipexport.jar | GZIP export. |
| GzipImport | sjars/gzipimport.jar | GZIP import. |
| Hydrogenize | sjars/hydrogenize.jar | Creates explicit H atoms from implicit ones. |
| ImageExport | sjars/imageexport.jar | Off screen image creation support. |
| InchiExport | sjars/inchiexport.jar | IUPAC InChi export. |
| InchiImport | sjars/inchiimport.jar | IUPAC InChi import. |
| Jpeg Import/Export | sjars/jpegio.jar | JPEG image export. |
| LicenseManager | sjars/Plugin.jar | License manager. |
| MChart | sjars/mchart.jar | Chart. |
| Mol2Export | sjars/mol2export.jar | Tripos Mol2 export. |
| Mol2Import | sjars/mol2import.jar | Tripos Mol2 import. |
| MolExport | sjars/molexport.jar | MDL molfile and compressed molfile export. |
| MolImport | sjars/molimport.jar | MDL molfile and compressed molfile import. |
| MPolylineModule | sjars/mpolylinemodule.jar | Polyline drawing. |
| MrvExport | sjars/mrvexport.jar | MRV export. |
| MrvImport | sjars/mrvimport.jar | MRV import. |
| MsbmpExport | sjars/msbmpexport.jar | MS BMP export. |
| MTextBoxModule | sjars/mtextboxmodule.jar | Textbox drawing. |
| MyformatExport | sjars/myformatexport.jar | Myformat export. |
| MyformatImport | sjars/myformatimport.jar | Myformat import. |
| NullExport | sjars/nullexport.jar | Export module with null output. |
| Parity | sjars/parity.jar | Parity. |
| PdbExport | sjars/pdbexport.jar | PDB export. |
| PdbImport | sjars/pdbimport.jar | PDB import. |
| PeptideExport | sjars/peptideexport.jar | Peptide export. |
| PeptideImport | sjars/peptideimport.jar | Peptide import. |
| Png Import/Export | sjars/pngio.jar | PNG export. |
| PovExport | sjars/povexport.jar | POV export. |
| PpmExport | sjars/ppmexport.jar | PPM export. |
| SmartsAtomQuerifier | sjars/smarts.jar | Partial interpretation of smarts atoms. |
| Spacefill | sjars/spacefill.jar | Spacefill. |
| SuperatomSgroupCoords | sjars/superatomsgroupcoords.jar | Recalculates atom coordinates for residue contraction or expansion. |
| Svg Import/Export | sjars/svgio.jar | SVG export |
| SybylExport | sjars/sybylexport.jar | Sybyl Export |
| SybylImport | sjars/sybylimport.jar | Sybyl Import |
| Threedim | sjars/threedim.jar | Threedim. |
| VectGraphicsExport | sjars/vectgraphicsexport.jar | EMF and PDF export. |
| XyzExport | sjars/xyzexport.jar | XYZ export. |
| XyzImport | sjars/xyzimport.jar | XYZ import. |
| common.swing.AboutJVM | sjars/common/swing/aboutjvm.jar | About JVM dialog. |
| common.swing.EditMolfileFrame | sjars/common/swing/editmolfileframe.jar | Molecule source window. |
| common.swing.ExceptionFrame | sjars/common/swing/exceptionframe.jar | Exception window. |
| common.swing.FontAttrPanel | sjars/common/swing/fontediting.jar | Format dialog. |
| common.swing.Help | sjars/common/swing/help.jar | Help window. |
| common.swing.LicenseHandlerDialog | sjars/licensehandlerdialog.jar | License hander dialog. |
| common.swing.LoadSave | sjars/common/swing/loadsave.jar | Load/Save dialog. |
| common.swing.modules.RegenBonds | sjars/common/swing/regenbonds.jar | Dialog box with bond generation options. Selecting Edit/Bonds/Regenerate in the menu brings up this dialog. |
| common.swing.MolSelectionSmi | sjars/common/swing/molselectionsmi.jar | Copy as SMILES. |
| common.swing.MolSelection | sjars/common/swing/molselection.jar | Copy/Paste functionality. |
| common.swing.MultiMoleculeSave | sjars/common/swing/multimoleculesave.jar | Save more molecules. |
| common.swing.Preferences | sjars/common/swing/preferences.jar | Preferences dialog. |
| common.swing.Print | sjars/common/swing/print.jar | Print functionality. |
| sketch.AtomActions | sjars/sketch/edit.jar | Clean ligands. |
| sketch.AtomMapper | sjars/atommapper.jar | Abbreviated group export. |
| sketch.LineSM | sjars/sketch/linesm.jar | Line drawing mode. |
| sketch.TextBoxSM | sjars/sketch/boxsm.jar | Textbox creating mode. |
| sketch.swing.AttachDataDialog | sjars/sketch/swing/attachdatadialog.jar | Attach data dialog box. |
| sketch.swing.GroupCreationDialog | sjars/sketch/swing/groupcreationdialog.jar | Create group dialog. |
| sketch.swing.MObjectPropertiesDialog | sjars/sketch/swing/mobjectpropertiesdialog.jar | Properties dialog of graphical objects. |
| sketch.swing.MTextBoxEditor | sjars/sketch/swing/textboxeditor.jar | Textbox editor. |
| sketch.swing.PeriodicFrame | sjars/sketch/swing/periodicframe.jar | Periodic system window. |
| sketch.swing.RlogicDialog | sjars/sketch/swing/rlogicdialog.jar | Rlogic dialog. |
| sketch.swing.SketchDnD | sjars/sketch/swing/sketchdnd.jar | Drag and Drop functionality in sketch. |
| sketch.swing.TemplateButtonDnD | sjars/sketch/swing/templatebuttondnd.jar | Drag and Drop for the molecule buttons. |
| sketch.swing.TemplateFrame.java | sjars/sketch/swing/templateframe.jar | Template window. |
| sketch.swing.TemplatePropertiesDialog | sjars/sketch/swing/templatepropertiesdialog.jar | Properties dialog for templates |
| view.NetscapeJavaScripter | sjars/view/scripter.jar | To call JavaScript from Java. |
| view.swing.CleanTable | sjars/view/swing/cleantable.jar | Clean the molecule table. |
| view.swing.GridBagView | sjars/view/swing/gridbagview.jar | GridBagLayout-like viewer table handler. |
| view.swing.ImageViewFrame | sjars/view/swing/imageviewframe.jar | Image viewer frame. |
| view.swing.LoadSave | sjars/view/swing/loadsave.jar | Load/Save dialog for viewer. |
| view.swing.MolsFrame | sjars/view/swing/molsframe.jar | Display multiple molecules. |
| view.swing.MViewAnimator | sjars/view/swing/mviewanimator.jar | Molecule rotation in the viewer. |
| view.swing.MViewFrame | sjars/view/swing/mviewframe.jar | Molecule viewer frame. |
| view.swing.MViewSketch | sjars/view/swing/mviewsketch.jar | MarvinView/MarvinSketch bridge. |
| view.swing.PrintView | sjars/view/swing/printview.jar | Print all molecules of a MarvinView. |
| view.swing.TableView | sjars/view/swing/tableview.jar | JTable based viewer handle. |
| view.swing.ViewDnD | sjars/view/swing/viewdnd.jar | Drag and Drop for the viewer. |
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