Markush Editor History of Changes

    Only major changes listed here, minor bugfixes, dependency updates, and smaller improvements are not included in the changelog.

    Markush Editor 21.12

    New Features and Improvements

    • Added automatic generalization of R-groups during the generation of the Markush structure (selectable option on the Compose Markush Structure Window)

    Markush Editor 21.10

    New Features and Improvements

    • Added option to select preference between IUPAC name/formula in the exported document for functional group names

    Markush Editor 21.9

    New Features and Improvements

    • Major Markush Editor layout changes

    • Improved freely resizable and reorganizable Validation view (moved from beow Markush tree to the right of it)

    • Added Example lists window for importing and managing multiple example structure sets for a single Markush

    • Loaded Example lists are now saved together with the Markush structures

    • Added Japanese Language support for document preview and export

    • Example structures can now be aligned to the scaffold from the context menu in Validation view

    • Nesting view and Preview can now be reached from Markush inspection views on the toolbar

    Markush Editor 21.4

    New Features and Improvements

    • Remove confusing attachment order indicators from R-groups in exported documents

    • Installer now works on MacOS Catalina

    Markush Editor 21.2

    New Features and Improvements

    • Claim checker for verrifying the consistency of claim hierarchy

    • Improved handling of heteroaromatic rings in composer

    • New replace fragments with more specific/more general feature

    Markush Editor 20.19

    New Features and Improvements

    • Basic support of claim hierarchy

    • Visual editor for custom fragment dictionary

    Markush Editor 20.17

    New Features and Improvements

    • Significant improvements in automatic scaffold detection (side changes handling)

    • Configurable fragment dictionary to overwrite the default fragment names in claim text generation

    Markush Editor 20.13

    New Features and Improvements

    • Export the exemplified structures list with structure images and IUPAC names to the generated document.

    Markush Editor 20.9

    New Features and Improvements

    • Markush to text export to DOCX format

    • Significant improvements in the quality of the generated claim draft


    • Unnecessary hit coloring removed from exported structure images

    Markush Editor 20.5

    New Features and Improvements

    • Major platform update (NetBeans platform version 9.0)

    Markush Editor 19.29


    • Make Markush required additional license

    • In some cases, aromatic and non-aromatic fragments are mixed in hit coloring

    Markush Editor 19.1

    New Features and Improvements

    • Markush structure to text export in HTML format

    Markush Editor 17.5

    New Features and Improvements

    • Version number system change

    Markush Editor 17.1.9

    New Features and Improvements

    • Configurable Markush validation options.

    • Bond length checker removed from the default checker configuration.

    • Major platform update (Netbeans platform version 8.0)

    Markush Editor 15.10.12

    New Features and Improvements

    • Rename R-groups from the tree.

    Markush Editor 15.9.28

    New Features and Improvements

    • Save validation result during structure list export.

    Markush Editor 15.9.21

    New Features and Improvements

    • The number of matching structures in validation view.

    • Ignore stereo during Markush validation

    Markush Editor 15.9.7

    New Features and Improvements

    • New composer dialog.

    • Composer input file with non-separated molecules allowed.

    Markush Editor 15.8.24

    New Features and Improvements

    • Stereo ignored during Markush validation and Non-Hit coloring.

    Markush Editor 15.6.22

    New Features and Improvements

    • logP filter in the biased enumeration.

    • Save and reset enumeration preferences.

    • New more-readable estimated library size format.


    • R-group aliases are not shown in the enumeration spreadsheet view.

    • Max. structure count applied before filtering resulting in fewer structures what is expected.

    Markush Editor 15.6.15

    New Features and Improvements

    • Markush validation against structure list, with built-in hit and non-hit visualization.

    • By using Markush Composer wizard validation structures automatically populated with the Composer's input structure list.

    • Hydrogen bond donors and acceptors filter in the biased enumeration.


    • Incorrect fragment size in a case of link node and repeating unit fixed.

    • A strange look of enumeration panel in Mac and Linux fixed.

    Markush Editor 15.6.1

    New Features and Improvements

    • Biased enumeration (directed enumeration based on user-defined parameters).

    • Molecular weight filter in the biased enumeration.

    • Unified Mac and Linux installer.

    Markush Editor 15.5.18

    New Features and Improvements

    • R-group inline action in Markush tree nodes context menu

    Markush Editor 15.5.4

    New Features and Improvements

    • Better display for Composer results.

    • Improved MCS calculation for R-group nesting.

    Markush Editor 15.4.20

    New Features and Improvements

    • Composer capable of generating Markush structures with position variation bonds.

    • Support of R-groups for user defined scaffold.

    Markush Editor 15.4.13

    New Features and Improvements

    • Info dialog if composer creates more than one Markush structures.

    Markush Editor 15.4.6

    New Features and Improvements

    • Atom list and bond list support in Composer for user defined scaffold.

    Markush Editor 15.3.30

    New Features and Improvements

    • Improved scaffold recognition in Composer..

    Markush Editor 15.3.23

    New Features and Improvements

    • Set scaffold function in Markush Composer wizard.

    Markush Editor 15.3.16

    New Features and Improvements

    • Display R-group alias instead of R-group number if it exists.

    Markush Editor 15.2.23

    New Features and Improvements

    • Smaller, fragment selection handling improvements.

    Markush Editor 15.2.16

    New Features and Improvements

    • New selection, hit error and warning visualization in Markush Tree and Fragment view.

    • Improved undo and redo mechanism, capable of handling structure fixer actions.

    • Mac and Linux installer..

    Markush Editor 15.2.9

    New Features and Improvements

    • A new selection hit error and warning visualization in Markush Tree and Fragment view.

    • Improved undo and redo mechanism, capable of handling structure fixer actions.

    Markush Editor 15.2.2

    New Features and Improvements

    • Support common hotkeys.

    • Add R-group attachments to fragments automatically in trivial cases.

    • Make structure fix actions undoable.


    • Enumeration exception in a case of undefined R-groups.

    Markush Editor 15.1.26

    New Features and Improvements

    • Automatic version update.

    • Reorganized preview and nesting view components.

    Markush Editor 15.1.12

    New Features and Improvements

    • Spreadsheet view for enumeration results with R-group fragments.

    • Duplicates and infeasible rings filter in the enumeration.

    • Enumeration results in export.

    Markush Editor 14.12.8

    New Features and Improvements

    • If a Markush structure inserted into the scaffold editor it automatically split to scaffold and fragments.

    Markush Editor 14.11.24


    • Display only explicit R/S labels.

    • Markush export error in some cases.

    • Wrong tab display names for files containing multiple structures.

    Markush Editor 14.11.17


    • Checker panel "invalid checker" warning fixed.

    Markush Editor 14.11.10


    • In the Markush tree view, scrolling to the selected structure checker result did not work properly.

    • Fixing only a selected structure checker result did not work properly in some cases.

    • Enumeration count of hHomologies modified to one regardless to the type of the homology.

    Markush Editor 14.10.27

    New Features and Improvements

    • R-group bridging support.

    Markush Editor 14.10.6

    New Features and Improvements

    • Dynamic enumeration count calculation.

    Markush Editor 14.9.29

    New Features and Improvements

    • Full view removed.

    • New action icons added.

    Markush Editor 14.9.22

    New Features and Improvements

    • Composer standardizer action for removing awkward/superfluous R-groups.

    • Composer scaffold calculation optimization.


    • Minor enumeration related bugfixes.

    Markush Editor 14.9.8

    New Features and Improvements

    • Support for open multiple files at once.

    • Improved re-ordering of fragments and R-groups.

    Markush Editor 14.8.25

    New Features and Improvements

    • List atom supports in the composer.

    • Migrated to Java 8.


    • Composer-related minor bugfixes.

    Markush Editor 14.8.18

    New Features and Improvements

    • Unnecessary fragment and scaffold cleaning removed.

    Markush Editor 14.8.4

    New Features and Improvements

    • MCS optimization for better scaffold recognition.

    Markush Editor 14.7.21


    • New empty file saving exception fixed.

    Markush Editor 14.7.14

    New Features and Improvements

    • "Don't show this message again" option for license warning in viewer mode.


    • Fewer Composer warnings.

    • Memory leak related to closed structures fixed.

    Markush Editor 14.7.7

    New Features and Improvements

    • Markush Composer Wizard for generating Markush structures automatically from the list of compounds.

    • Improved fragment visualization.

    • Fragments' borders removed.

    • Random enumeration when only scaffold selected.

    • The opening sketch window by double clicking.

    • Improved product info dialog.


    • New files naming error fixed by confusing temporary file ID removed.

    • Timing error related to fast tabs opening fixed.

    Markush Editor 6.3.0

    New Features and Improvements

    • First public release.