diff --git a/rst/download/ketcher.rst b/rst/download/ketcher.rst index 6ea4494..b1a3456 100644 --- a/rst/download/ketcher.rst +++ b/rst/download/ketcher.rst @@ -7,7 +7,7 @@ Latest release .. toctree:: :maxdepth: 1 - ketcher/ketcher-3.7.0.rst + ketcher/ketcher-3.12.0.rst Older releases @@ -16,6 +16,11 @@ Older releases .. toctree:: :maxdepth: 1 + ketcher/ketcher-3.11.0.rst + ketcher/ketcher-3.10.0.rst + ketcher/ketcher-3.9.0.rst + ketcher/ketcher-3.8.0.rst + ketcher/ketcher-3.7.0.rst ketcher/ketcher-3.6.0.rst ketcher/ketcher-3.5.0.rst ketcher/ketcher-3.4.0.rst diff --git a/rst/download/ketcher/ketcher-3.10.0.rst b/rst/download/ketcher/ketcher-3.10.0.rst new file mode 100644 index 0000000..52dfaee --- /dev/null +++ b/rst/download/ketcher/ketcher-3.10.0.rst @@ -0,0 +1,24 @@ +Ketcher 3.10.0 +-------------- + +Ketcher distributions +^^^^^^^^^^^^^^^^^^^^^ + +`Ketcher 3.10.0 standalone `__ + +`Ketcher 3.10.0 remote `__ + + +NPM packages +^^^^^^^^^^^^ + +| `ketcher-core `__ +| `ketcher-react `__ +| `ketcher-standalone `__ +| `ketcher-macromolecules `__ + + +Source code +^^^^^^^^^^^ + +`Source code on GitHub `__ diff --git a/rst/download/ketcher/ketcher-3.11.0.rst b/rst/download/ketcher/ketcher-3.11.0.rst new file mode 100644 index 0000000..43b2b96 --- /dev/null +++ b/rst/download/ketcher/ketcher-3.11.0.rst @@ -0,0 +1,24 @@ +Ketcher 3.11.0 +-------------- + +Ketcher distributions +^^^^^^^^^^^^^^^^^^^^^ + +`Ketcher 3.11.0 standalone `__ + +`Ketcher 3.11.0 remote `__ + + +NPM packages +^^^^^^^^^^^^ + +| `ketcher-core `__ +| `ketcher-react `__ +| `ketcher-standalone `__ +| `ketcher-macromolecules `__ + + +Source code +^^^^^^^^^^^ + +`Source code on GitHub `__ diff --git a/rst/download/ketcher/ketcher-3.12.0.rst b/rst/download/ketcher/ketcher-3.12.0.rst new file mode 100644 index 0000000..8c65d90 --- /dev/null +++ b/rst/download/ketcher/ketcher-3.12.0.rst @@ -0,0 +1,24 @@ +Ketcher 3.12.0 +-------------- + +Ketcher distributions +^^^^^^^^^^^^^^^^^^^^^ + +`Ketcher 3.12.0 standalone `__ + +`Ketcher 3.12.0 remote `__ + + +NPM packages +^^^^^^^^^^^^ + +| `ketcher-core `__ +| `ketcher-react `__ +| `ketcher-standalone `__ +| `ketcher-macromolecules `__ + + +Source code +^^^^^^^^^^^ + +`Source code on GitHub `__ diff --git a/rst/download/ketcher/ketcher-3.8.0.rst b/rst/download/ketcher/ketcher-3.8.0.rst new file mode 100644 index 0000000..e768895 --- /dev/null +++ b/rst/download/ketcher/ketcher-3.8.0.rst @@ -0,0 +1,24 @@ +Ketcher 3.8.0 +------------- + +Ketcher distributions +^^^^^^^^^^^^^^^^^^^^^ + +`Ketcher 3.8.0 standalone `__ + +`Ketcher 3.8.0 remote `__ + + +NPM packages +^^^^^^^^^^^^ + +| `ketcher-core `__ +| `ketcher-react `__ +| `ketcher-standalone `__ +| `ketcher-macromolecules `__ + + +Source code +^^^^^^^^^^^ + +`Source code on GitHub `__ diff --git a/rst/download/ketcher/ketcher-3.9.0.rst b/rst/download/ketcher/ketcher-3.9.0.rst new file mode 100644 index 0000000..6c8de75 --- /dev/null +++ b/rst/download/ketcher/ketcher-3.9.0.rst @@ -0,0 +1,24 @@ +Ketcher 3.9.0 +------------- + +Ketcher distributions +^^^^^^^^^^^^^^^^^^^^^ + +`Ketcher 3.9.0 standalone `__ + +`Ketcher 3.9.0 remote `__ + + +NPM packages +^^^^^^^^^^^^ + +| `ketcher-core `__ +| `ketcher-react `__ +| `ketcher-standalone `__ +| `ketcher-macromolecules `__ + + +Source code +^^^^^^^^^^^ + +`Source code on GitHub `__ diff --git a/rst/ketcher/demo/ketcher_remote.rst b/rst/ketcher/demo/ketcher_remote.rst index ee4ed2c..5064266 100644 --- a/rst/ketcher/demo/ketcher_remote.rst +++ b/rst/ketcher/demo/ketcher_remote.rst @@ -1,4 +1,4 @@ -Ketcher 3.7.0 Remote +Ketcher 3.12.0 Remote ===================== .. toctree:: @@ -10,6 +10,6 @@ Ketcher demo page was moved. Please use the following link .. raw:: html - Ketcher 3.7.0 Remote + Ketcher 3.12.0 Remote diff --git a/rst/ketcher/demo/ketcher_standalone.rst b/rst/ketcher/demo/ketcher_standalone.rst index d7de831..ef2b971 100644 --- a/rst/ketcher/demo/ketcher_standalone.rst +++ b/rst/ketcher/demo/ketcher_standalone.rst @@ -1,4 +1,4 @@ -Ketcher 3.7.0 Standalone +Ketcher 3.12.0 Standalone ========================= .. toctree:: @@ -11,6 +11,6 @@ Ketcher demo page was moved. Please use the following link .. raw:: html - Ketcher 3.7.0 Standalone + Ketcher 3.12.0 Standalone diff --git a/rst/ketcher/release-notes/index.rst b/rst/ketcher/release-notes/index.rst index a1615d3..3a1ea65 100644 --- a/rst/ketcher/release-notes/index.rst +++ b/rst/ketcher/release-notes/index.rst @@ -53,3 +53,8 @@ Contents: ketcher-3.5.0 ketcher-3.6.0 ketcher-3.7.0 + ketcher-3.8.0 + ketcher-3.9.0 + ketcher-3.10.0 + ketcher-3.11.0 + ketcher-3.12.0 diff --git a/rst/ketcher/release-notes/ketcher-3.10.0.md b/rst/ketcher/release-notes/ketcher-3.10.0.md new file mode 100644 index 0000000..cccf622 --- /dev/null +++ b/rst/ketcher/release-notes/ketcher-3.10.0.md @@ -0,0 +1,44 @@ + +# Ketcher 3.10.0 + +## What's Changed + +### New features +- [#7500](https://github.com/epam/ketcher/issues/7500) – Update the monomer preview +- [#7633](https://github.com/epam/ketcher/issues/7633) – Allow for setting of modification type in the monomer creation wizard +- [#7932](https://github.com/epam/ketcher/issues/7932) – Add warning messages to the monomer creation wizard in case of unusual leaving group atoms +- [#7928](https://github.com/epam/ketcher/issues/7928) – Allow for setting of HELM alias in the monomer creation wizard +- [#8200](https://github.com/epam/ketcher/issues/8200) – Add parameter to Editor to disable saving new monomers to local storage +- [#8281](https://github.com/epam/ketcher/issues/8281) – Adjust subscription to library update event of Ketcher API +- [#7905](https://github.com/epam/ketcher/issues/7905) – Selection logic change and toolbar icons enabling for the monomer creation wizard +- [#7970](https://github.com/epam/ketcher/issues/7970) – Include 'Create cyclic structure' option in the context menu for Flex mode + +### Bugfixes and improvements +- [#8602](https://github.com/epam/ketcher/issues/8602) – Migrate to Indigo v1.38.0 in-browser module +- [#7971](https://github.com/epam/ketcher/issues/7971) – Update the help document (3.9.) +- [#7887](https://github.com/epam/ketcher/issues/7887) – Molecule rotation causes error in console: Uncaught TypeError: Cannot read properties of undefined (reading 'pp') +- [#4467](https://github.com/epam/ketcher/issues/4467) – Ket label should be renamed to Ket Format +- [#7746](https://github.com/epam/ketcher/issues/7746) – System replace few spaces in monomer name to one space on monomer preview +- [#7421](https://github.com/epam/ketcher/issues/7421) – "Ghost image" of CHEM is white (different from "ghost image" of other monomer types) +- [#7740](https://github.com/epam/ketcher/issues/7740) – System should not allow to fill Symbol and Name fields if Type is not selected on Monomer creation wizard +- [#3742](https://github.com/epam/ketcher/issues/3742) – Wrong tooltip for "minimize window" button (shows "expand window") +- [#7373](https://github.com/epam/ketcher/issues/7373) – "Grabbing hand" mouse cursor is absent on grabbing monomers from the library +- [#5570](https://github.com/epam/ketcher/issues/5570) – PNG and SVG exported images should be identical to how the canvas looks like in case of Chiral label +- [#8294](https://github.com/epam/ketcher/issues/8294) – Do allow to collapse s-groups (superatom type) without name +- [#7936](https://github.com/epam/ketcher/issues/7936) – Add tooltips to some attachment points in the monomer creation wizard +- [#7997](https://github.com/epam/ketcher/issues/7997) – For non-potential-AAs the related context menu option (Mark as connection point,) should be disabled +- [#8328](https://github.com/epam/ketcher/issues/8328) – Modification drop-down list is not ordered as required (Natural Amino Acid first, others alphabetically) +- [#8377](https://github.com/epam/ketcher/issues/8377) – Add data-topology and data-reacting-center attributes for bonds +- [#7553](https://github.com/epam/ketcher/issues/7553) – Dropdown for switching between Macro and Micro modes does not appear in fullscreen mode +- [#5520](https://github.com/epam/ketcher/issues/5520) – Percentages for mixed bases ain't sorted from biggest to smallest in tooltip +- [#8414](https://github.com/epam/ketcher/issues/8414) – System should throw The following string cannot be interpreted as an AxoLabs string. error if symbols without brackets cannot be interpreted +- [#8039](https://github.com/epam/ketcher/issues/8039) – Ketcher doesn't send input_format parameter to Indigo in case of AxoLab load request +- [#8418](https://github.com/epam/ketcher/issues/8418) – All monomers from SDF loaded via updateMonomersLibrary appear in Base group instead of their correct classes +- [#8404](https://github.com/epam/ketcher/issues/8404) – No documentation for libraryUpdate event subscription +- [#8463](https://github.com/epam/ketcher/issues/8463) – Batch monomer import aborts on a single invalid entry and does not indicate which record failed Standalone mode +- [#8599](https://github.com/epam/ketcher/issues/8599) – Correct the stereo-bonds of sugars + +--- + +### Additional notes: +- Ketcher 3.10.0 has been built and tested with Indigo version 1.38 ([standalone](https://www.npmjs.com/package/indigo-ketcher/v/1.38.0) and [remote](https://hub.docker.com/layers/epmlsop/indigo-service/1.38.0/images/sha256-40d4d9d732606381a5a3bc9ae5e5ed94a0a948c6e6460e33278285d3d2e71d4a)). diff --git a/rst/ketcher/release-notes/ketcher-3.11.0.md b/rst/ketcher/release-notes/ketcher-3.11.0.md new file mode 100644 index 0000000..1a8c6fa --- /dev/null +++ b/rst/ketcher/release-notes/ketcher-3.11.0.md @@ -0,0 +1,78 @@ + +# Ketcher 3.11.0 + +## What's Changed + +### New features +- [#8248](https://github.com/epam/ketcher/issues/8248) – Define nucleotide presets using the monomer creation wizard (POC) +- [#8254](https://github.com/epam/ketcher/issues/8254) – Allow for stereo bonds up and down to be a bond between AA and LGA +- [#8383](https://github.com/epam/ketcher/issues/8383) – Introduce library searching using HELM aliases, AxoLabs aliases, and modification types +- [#7915](https://github.com/epam/ketcher/issues/7915) – Enable flipping of all expanded monomers in a structure +- [#8363](https://github.com/epam/ketcher/issues/8363) – Include 'Arrange as a Ring' button for Flex mode + +### Bugfixes and improvements +- [#8386](https://github.com/epam/ketcher/issues/8386) – Update the help document (3.10.) +- [#8739](https://github.com/epam/ketcher/issues/8739) – Migrate to Indigo v1.39.0-rc.1 in-browser module +- [#4188](https://github.com/epam/ketcher/issues/4188) – Choosing wedged/hashed bond direction doesn't work from right-clicking context menu +- [#7148](https://github.com/epam/ketcher/issues/7148) – Number of selected elements in context menu is wrong for sense/antisense chain +- [#7735](https://github.com/epam/ketcher/issues/7735) – System shows inner circles of aromatized benzene rings from collapsed monomers on Molecules canvas +- [#6855](https://github.com/epam/ketcher/issues/6855) – Labels for empty ambiguous monomer categories are present in the library +- [#7244](https://github.com/epam/ketcher/issues/7244) – File format name for Sequence is cut off in Save Structure modal dropdown +- [#5578](https://github.com/epam/ketcher/issues/5578) – Peptide section for ambiguous monomers should have "Ambiguous Amino Acids" name +- [#5580](https://github.com/epam/ketcher/issues/5580) – Order of sections for ambiguous bases is wrong - Ambiguous Bases should come first +- [#5927](https://github.com/epam/ketcher/issues/5927) – Font size and label position should be corrected at "Open structure" dialog +- [#7995](https://github.com/epam/ketcher/issues/7995) – Unable to create more than one attachment point per atom +- [#8395](https://github.com/epam/ketcher/issues/8395) – "Attachment points are set +- [#5481](https://github.com/epam/ketcher/issues/5481) – Ambiguous CHEM shown wrong at Sequence mode +- [#5799](https://github.com/epam/ketcher/issues/5799) – S-Group properties window should be disabled for monomers +- [#7385](https://github.com/epam/ketcher/issues/7385) – Cannot delete and copy microstructures via right-click context menu in macromolecule canvas +- [#4772](https://github.com/epam/ketcher/issues/4772) – Fix Platinum valence +- [#8403](https://github.com/epam/ketcher/issues/8403) – There is no way to remove HELM alias +- [#7506](https://github.com/epam/ketcher/issues/7506) – Tooltip is shown in wrong place for ambigous monomers in popup mode +- [#8461](https://github.com/epam/ketcher/issues/8461) – Function calls should not pass extra arguments +- [#6737](https://github.com/epam/ketcher/issues/6737) – `5NitInd` unsplit nucleotide should be shown as X symbol instead of @ one +- [#8459](https://github.com/epam/ketcher/issues/8459) – Getters and setters should access the expected fields +- [#5361](https://github.com/epam/ketcher/issues/5361) – getInChIKey returns just the InChI string as JSON +- [#5751](https://github.com/epam/ketcher/issues/5751) – Establishing connection between ambiguous CHEMs works wrong +- [#5214](https://github.com/epam/ketcher/issues/5214) – The tooltip does not appear below the cursor when hovering over the "plus" button and stripe +- [#6725](https://github.com/epam/ketcher/issues/6725) – Ambiguous sugars (alternatives and mixed) in sequence shown as % symbol instead of @ symbol +- [#4891](https://github.com/epam/ketcher/issues/4891) – When using the "ketcher.setMode(mode)" method, the icon of the "Type mode" drop-down does not change +- [#8554](https://github.com/epam/ketcher/issues/8554) – System losts AxoLabs alias while save it KET +- [#8556](https://github.com/epam/ketcher/issues/8556) – System losts Modification types values while save it KET +- [#7372](https://github.com/epam/ketcher/issues/7372) – "Ghost image" doesn't satisfy the UX design +- [#6731](https://github.com/epam/ketcher/issues/6731) – Ambiguous phosphates (alternatives and mixed) in sequence shown as % symbol instead of @ symbol +- [#8584](https://github.com/epam/ketcher/issues/8584) – Tooltip for attachment points appears too far from attachment point +- [#8397](https://github.com/epam/ketcher/issues/8397) – Context menu remains visible after creating cyclic structure via right-click menu +- [#7776](https://github.com/epam/ketcher/issues/7776) – In Macro mode clicking on Selection tool icon does not open dropdown menu as in Micro mode +- [#4645](https://github.com/epam/ketcher/issues/4645) – In the "Modify RNA Builder" mode, when hovering over the buttons "Yes" and "Cancel" in the "Update Sequence" window, tooltips are displayed +- [#7610](https://github.com/epam/ketcher/issues/7610) – R-groups are not shown if to Open from file as New project +- [#7559](https://github.com/epam/ketcher/issues/7559) – Charge tools doesn't work for "star" atoms +- [#7022](https://github.com/epam/ketcher/issues/7022) – Dropdown for units (Da/kDa/MDa) is not aligned in width with the selector button +- [#5677](https://github.com/epam/ketcher/issues/5677) – Preview for chain of CHEMs works wrong in sequence mode +- [#5664](https://github.com/epam/ketcher/issues/5664) – Selection circle is different on micro and macro mode +- [#5469](https://github.com/epam/ketcher/issues/5469) – Preview tooltips for monomers loaded from HELM with inline smiles are wrong +- [#7956](https://github.com/epam/ketcher/issues/7956) – Presence of R32 group in molecule makes impossible to create monomer from it +- [#5534](https://github.com/epam/ketcher/issues/5534) – Ambiguous monomer tooltip content doesn't sorted properly in case of equal quantities +- [#5382](https://github.com/epam/ketcher/issues/5382) – System shouln't allow user to load empty mol file - Add to Canvas should be disabled +- [#7689](https://github.com/epam/ketcher/issues/7689) – No tooltip shown and invalid attachments allowed when adding monomers consecutively without moving mouse from arrow button +- [#5567](https://github.com/epam/ketcher/issues/5567) – System losts height data during copy/paste operation +- [#7191](https://github.com/epam/ketcher/issues/7191) – Change 3SS6 monomer type to Phosphate +- [#8726](https://github.com/epam/ketcher/issues/8726) – Name should not be mandatory any more, Symbol value should be used instead if user left it empty +- [#8723](https://github.com/epam/ketcher/issues/8723) – User should be able to type ambiguous monomers symbols in edit sequence mode (current sequence type should be taken in to account) +- [#6730](https://github.com/epam/ketcher/issues/6730) – System doesn't unite ambiguous bases (alternatives and mixed) into one @ symbol +- [#8721](https://github.com/epam/ketcher/issues/8721) – Create a monomer button remain selected (colored) after user done with monomer creation (creation wizard got closed) +- [#8720](https://github.com/epam/ketcher/issues/8720) – Library update event is triggered after API usage +- [#7578](https://github.com/epam/ketcher/issues/7578) – Undo/Redo restores partial selection after cancelling monomer creation +- [#8752](https://github.com/epam/ketcher/issues/8752) – All types of ambiguous monomers alone represented on sequence canvas as @ symbol should be represented +- [#7519](https://github.com/epam/ketcher/issues/7519) – In case of multiple R1 or R2 groups second R1/R2 groups should be assigned to the smallest available Rn (n>2) if available +- [#5922](https://github.com/epam/ketcher/issues/5922) – Non-polar amino acid (with W as natural analog) should have shade of green but currently it is violet +- [#5445](https://github.com/epam/ketcher/issues/5445) – Labels for ambiguous monomers at Bond Preview tooltip are wrong +- [#7189](https://github.com/epam/ketcher/issues/7189) – Unknown unsplit nucleotide looks like chem +- [#8846](https://github.com/epam/ketcher/issues/8846) – Unable to create more than one nucleotide monomer - system throws exception +- [#8845](https://github.com/epam/ketcher/issues/8845) – Creation nucleortide preset causes som bonds to disappear +- [#8847](https://github.com/epam/ketcher/issues/8847) – Former molecule selection causes invalid attachment point creation in Monomer creation wizard + +--- + +### Additional notes: +- Ketcher 3.11.0 has been built and tested with Indigo version 1.39 ([standalone](https://www.npmjs.com/package/indigo-ketcher/v/1.39.0) and [remote](https://hub.docker.com/layers/epmlsop/indigo-service/1.39.0/images/sha256-f123ddf09033a88978f0a81f4e3e9bb617fa7034a9c57bea76fae876321ed8fc)). diff --git a/rst/ketcher/release-notes/ketcher-3.12.0.md b/rst/ketcher/release-notes/ketcher-3.12.0.md new file mode 100644 index 0000000..39eaa60 --- /dev/null +++ b/rst/ketcher/release-notes/ketcher-3.12.0.md @@ -0,0 +1,49 @@ + +# Ketcher 3.12.0 + +## What's Changed + +### New features +- [#8777](https://github.com/epam/ketcher/issues/8777) – Change the logic for activation of 'Arrange as a Ring' tool and context menu item +- [#8781](https://github.com/epam/ketcher/issues/8781) – Change the logic for attachment points editing drop-down in the monomer creation wizard +- [#8857](https://github.com/epam/ketcher/issues/8857) – Monomer saving - presets in the monomer creation wizard +- [#8856](https://github.com/epam/ketcher/issues/8856) – Defining other monomer properties - presets in the monomer creation wizard +- [#8866](https://github.com/epam/ketcher/issues/8866) – Defining the preset - presets in the monomer creation wizard +- [#8851](https://github.com/epam/ketcher/issues/8851) – Highlighting presets in the monomer creation wizard +- [#8854](https://github.com/epam/ketcher/issues/8854) – Defining the preset - presets in the monomer creation wizard +- [#8849](https://github.com/epam/ketcher/issues/8849) – Entering the wizard - presets in the monomer creation wizard +- [#8852](https://github.com/epam/ketcher/issues/8852) – Additions to the structure - presets in the monomer creation wizard +- [#8850](https://github.com/epam/ketcher/issues/8850) – Add "Mark as a..." context menu option for Nucleotide (preset) in monomer creation wizard +- [#8008](https://github.com/epam/ketcher/issues/8008) – Implementation of Copolymer S-Group type + +### Bugfixes and improvements +- [#8437](https://github.com/epam/ketcher/issues/8437) – If no selection made, system doesn't define attachment points for monomer +- [#5701](https://github.com/epam/ketcher/issues/5701) – It is possible to connect all APs to same atom +- [#8800](https://github.com/epam/ketcher/issues/8800) – The hover on a selected atom differs in micro mode and in macro mode +- [#7797](https://github.com/epam/ketcher/issues/7797) – Underline colour for the base counter in the Calculate Properties window doesn't fit the requirement +- [#7789](https://github.com/epam/ketcher/issues/7789) – Fragment selection highlighting inconsistent between Micro and Macro modes +- [#7325](https://github.com/epam/ketcher/issues/7325) – Right-click copy option does not work for microstructures on macro canvas +- [#8837](https://github.com/epam/ketcher/issues/8837) – No bad valence indication on Macromolecules canvas +- [#8792](https://github.com/epam/ketcher/issues/8792) – Rename monomer symbol to monomer code in the monomer creation wizard. +- [#8898](https://github.com/epam/ketcher/issues/8898) – Selection ignored in Ketcher API calls +- [#7128](https://github.com/epam/ketcher/issues/7128) – Molecular formula letters are not on the same level +- [#8641](https://github.com/epam/ketcher/issues/8641) – Tooltip in popup Ketcher sequence mode appears beyond view area for sequences at the top +- [#4724](https://github.com/epam/ketcher/issues/4724) – After clicking the "Clear Canvas" button multiple times, a user has to click the "Undo" button multiple times to return the structure +- [#6071](https://github.com/epam/ketcher/issues/6071) – Change event does not trigger after switching to Micro mode +- [#6236](https://github.com/epam/ketcher/issues/6236) – Cycled aromatic bond looks wrong on Macro canvas +- [#7123](https://github.com/epam/ketcher/issues/7123) – Deleting one of multiple monomers does not trigger recalculation in Calculate Properties window +- [#5170](https://github.com/epam/ketcher/issues/5170) – Fixed "Process is not defined" error is displayed in console after Clearing Canvas in Macro Mode with the element with an attachment point and switching to Micro +- [#5125](https://github.com/epam/ketcher/issues/5125) – Fixed after copying and pasting, structure under cursor causes Uncaught TypeErrors in DevTool console when approaching the edges of canvas +- [#8205](https://github.com/epam/ketcher/issues/8205) – System shouldn't allow to upload monomers with no base IDT alias defined +- [#5656](https://github.com/epam/ketcher/issues/5656) – Bond properties are not implemented +- [#8954](https://github.com/epam/ketcher/issues/8954) – Undo/redo operations doesn't work for atoms, arrows and pluses after changing their positions in Macro mode +- [#7188](https://github.com/epam/ketcher/issues/7188) [#7190](https://github.com/epam/ketcher/issues/7190) [#7255](https://github.com/epam/ketcher/issues/7255) – Unknown peptide, sugar, unknown base and unknown phosphate looks like chems (in addition ketcher wrongly considers R3-R1 connection between unknown sugar and/or unknown base as side chain connection) +- [#9047](https://github.com/epam/ketcher/issues/9047) – Leaving group atom position is incorrect for nucleotides created in monomer wizard +- [#9032](https://github.com/epam/ketcher/issues/9032) – Flex mode icon is active after ketcher close and open again +- [#8965](https://github.com/epam/ketcher/issues/8965) – Migrate to Indigo v1.40.0 in-browser module +- [#8918](https://github.com/epam/ketcher/issues/8918) – Update the help document (3.11.) + +--- + +### Additional notes: +- Ketcher 3.12.0 has been built and tested with Indigo version 1.40 ([standalone](https://www.npmjs.com/package/indigo-ketcher/v/1.40.0) and [remote](https://hub.docker.com/layers/epmlsop/indigo-service/1.40.0/images/sha256-865dd73f1ee9c49bcde04f6529ec6f16a3943a7985aa31df691378a27cb98056)). diff --git a/rst/ketcher/release-notes/ketcher-3.8.0.md b/rst/ketcher/release-notes/ketcher-3.8.0.md new file mode 100644 index 0000000..b5bd4b1 --- /dev/null +++ b/rst/ketcher/release-notes/ketcher-3.8.0.md @@ -0,0 +1,60 @@ + +# Ketcher 3.8.0 + +## What's Changed + +### New features +- [#6287](https://github.com/epam/ketcher/issues/6287) – Expanding the snap functionality to monomer groups inside of a structure +- [#7441](https://github.com/epam/ketcher/issues/7441) – Allow for modification of the attachment points in the monomer creation wizard +- [#6657](https://github.com/epam/ketcher/issues/6657) – Bump react to ^19.0.0 in ketcher-react package +- [#6358](https://github.com/epam/ketcher/issues/6358) – Add lasso selection/fragment selection tool in macromolecules mode +- [#7554](https://github.com/epam/ketcher/issues/7554) – Correct existing and add new structures to the library with appropriate IDT codes +- [#7221](https://github.com/epam/ketcher/issues/7221) – Change the colour of nucleobases +- [#7384](https://github.com/epam/ketcher/issues/7384) – Create documentation for hiding toolbar buttons +- [#7505](https://github.com/epam/ketcher/issues/7505) – Update the help document (3.7.) +- [#7760](https://github.com/epam/ketcher/issues/7760) – Migrate to Indigo v1.36.0 in-browser module + +### Bugfixes and improvements +- [#7222](https://github.com/epam/ketcher/issues/7222) – Incorrect leaving group atoms for expanded monomers +- [#6993](https://github.com/epam/ketcher/issues/6993) – Atoms and "monomer to atom bonds" are not removed when all other bonds are removed from atom +- [#7619](https://github.com/epam/ketcher/issues/7619) – Pressing ? key at Text Editor form while creation text label opens Macromolecules help link +- [#7525](https://github.com/epam/ketcher/issues/7525) – Specify a target origin for this message. vulnerability +- [#6747](https://github.com/epam/ketcher/issues/6747) – Unnecessary leaving groups (R-groups) appear upon "Removing Abbreviation" of expanded monomer when an attachment point is occupied +- [#7571](https://github.com/epam/ketcher/issues/7571) – Ctrl+M does not open monomer creation wizard when selection meets conditions +- [#7683](https://github.com/epam/ketcher/issues/7683) – Remove Add attachment point functionality +- [#7578](https://github.com/epam/ketcher/issues/7578) – Undo/Redo restores partial selection after cancelling monomer creation +- [#7509](https://github.com/epam/ketcher/issues/7509) – Export to SVG doesn't work in Ketcher mode +- [#7788](https://github.com/epam/ketcher/issues/7788) – Tooltip and restriction not triggered when selecting monomer without R2 in Macro mode +- [#7794](https://github.com/epam/ketcher/issues/7794) – Selection remains on original structure after creating Antisense RNA/DNA and cannot be cleared by canvas click +- [#7782](https://github.com/epam/ketcher/issues/7782) – In Macro mode selection tool resets to Rectangle when switching between Flex, Snake, and Sequence modes +- [#7791](https://github.com/epam/ketcher/issues/7791) – Highlight is not secured for clicked r label in monomer creation wizard +- [#7152](https://github.com/epam/ketcher/issues/7152) – Copy keyboard shortcut works wrong for text content +- [#7837](https://github.com/epam/ketcher/issues/7837) – Unable to create monomer if molecule loaded from KET +- [#7846](https://github.com/epam/ketcher/issues/7846) – Connection between created monomer and the rest of molecule got lost after monomer creation +- [#7814](https://github.com/epam/ketcher/issues/7814) – Connection point enumeration is wrong if they are already enumerated form range [3-8] +- [#7688](https://github.com/epam/ketcher/issues/7688) – Attached groups are lost when saving and reopening monomer created via Monomer Wizard in KET format +- [#7828](https://github.com/epam/ketcher/issues/7828) – Unable to assign atom as a leaving group event if it is eligable +- [#7806](https://github.com/epam/ketcher/issues/7806) – Problematic points are not highlighted in red when validation is failed +- [#7877](https://github.com/epam/ketcher/issues/7877) – Ketcher losts attachment point name on loading s-group from mol v3000 +- [#7786](https://github.com/epam/ketcher/issues/7786) – In Snake mode after Undo bonds remain on canvas and cause console errors +- [#7777](https://github.com/epam/ketcher/issues/7777) – Incorrect shortcut displayed for selection tools in Macro mode +- [#7854](https://github.com/epam/ketcher/issues/7854) – Ketcher api doesn't work in proper order +- [#7785](https://github.com/epam/ketcher/issues/7785) – Clicking toolbar buttons resets selection tool from Lasso/Fragment to Rectangle +- [#7784](https://github.com/epam/ketcher/issues/7784) – In Sequence mode selection tool resets to Rectangle when entering or exiting sequence edit mode +- [#7850](https://github.com/epam/ketcher/issues/7850) – System doesn't add the leaving group atom (a hydrogen) by default at the end of the bond connecting the attachment atom and the non-selected part of the structure +- [#7807](https://github.com/epam/ketcher/issues/7807) – Selection of cyclic molecule causes application crash: Uncaught ReferenceError: process is not defined +- [#7817](https://github.com/epam/ketcher/issues/7817) – Connection point enumeration is wrong R-groups outside [1-8] range +- [#7838](https://github.com/epam/ketcher/issues/7838) – The leaving group atom (a hydrogen) is not added by default at the end of the bond +- [#7821](https://github.com/epam/ketcher/issues/7821) – Connection point enumeration is wrong R-groups outside [3-8] range +- [#7813](https://github.com/epam/ketcher/issues/7813) – System should not allow to create monomer if atom with many R-groups in the selection +- [#7815](https://github.com/epam/ketcher/issues/7815) – System changes right connection point (R2) to left one (R1) if no R1 group defined +- [#7816](https://github.com/epam/ketcher/issues/7816) – System swaps left connection point (R2) and right connection point (R1) if R2 group was created early that R1 +- [#7606](https://github.com/epam/ketcher/issues/7606) – Pasting text into Symbol or Name fields in Monomer Wizard triggers unrelated "Convert error" +- [#7801](https://github.com/epam/ketcher/issues/7801) – Incorrect edit dialog behaviour when right-clicking on attachment atom +- [#7798](https://github.com/epam/ketcher/issues/7798) – Atom label is not correct in attributes panel for leaving atoms different from hydrogen +- [#7804](https://github.com/epam/ketcher/issues/7804) – Incorrect atom label upon monomer saving when removing automatically assigned attachment point via R-group + +--- + +### Additional notes: +- Ketcher 3.8.0 has been built and tested with Indigo version 1.36 ([standalone](https://www.npmjs.com/package/indigo-ketcher/v/1.36.0) and [remote](https://hub.docker.com/layers/epmlsop/indigo-service/1.36.0/images/sha256-a9f6b7cea8e465f097cc36d0dc088a54040439aedbb7ee33da301ae796463344)). diff --git a/rst/ketcher/release-notes/ketcher-3.9.0.md b/rst/ketcher/release-notes/ketcher-3.9.0.md new file mode 100644 index 0000000..2b474dd --- /dev/null +++ b/rst/ketcher/release-notes/ketcher-3.9.0.md @@ -0,0 +1,54 @@ + +# Ketcher 3.9.0 + +## What's Changed + +### New features +- [#7690](https://github.com/epam/ketcher/issues/7690) – Allow for modification of the structure in the monomer creation wizard +- [#7730](https://github.com/epam/ketcher/issues/7730) – Continuation of attachment points editing in the monomer creation wizard +- [#7748](https://github.com/epam/ketcher/issues/7748) – AxoLabs format support +- [#7674](https://github.com/epam/ketcher/issues/7674) – Add ability to update monomers library API in SDF format +- [#7560](https://github.com/epam/ketcher/issues/7560) – Improving snake layout logic to include small molecules +- [#7709](https://github.com/epam/ketcher/issues/7709) – Update the help document (3.8.) +- [#8270](https://github.com/epam/ketcher/issues/8270) – Migrate to Indigo v1.37.0 in-browser module + +### Bugfixes and improvements +- [#7572](https://github.com/epam/ketcher/issues/7572) – "Create a monomer" option is missing in right-click menu when selection meets conditions +- [#7443](https://github.com/epam/ketcher/issues/7443) – Save to SDF button is missed on Salts and Solvents tab in Structure Library dialog +- [#7359](https://github.com/epam/ketcher/issues/7359) – Stereochemistry dialog crashes Ketcher if only one stereo bond on the canvas +- [#7697](https://github.com/epam/ketcher/issues/7697) – IDT alias of CHEM 5TAMRA is displayed wrong +- [#7919](https://github.com/epam/ketcher/issues/7919) – Change the symbol of CHEM Cy5.5 dye +- [#5417](https://github.com/epam/ketcher/issues/5417) – IDT aliases not shown at preview tooltip at Monomer Library +- [#5202](https://github.com/epam/ketcher/issues/5202) – Update visuals in Right-click context menu +- [#7395](https://github.com/epam/ketcher/issues/7395) – Line between Paste option and Create RNA antisense strand option is missing in the context menu +- [#7364](https://github.com/epam/ketcher/issues/7364) – Gap between icon and Delete label is twice bigger than it should be in Molecules mode +- [#7327](https://github.com/epam/ketcher/issues/7327) – Missing separator line above "Delete" in context menu +- [#7256](https://github.com/epam/ketcher/issues/7256) – Ketcher losts aliasHELM property for unknown monomers that makes export to HELM incorrect +- [#7912](https://github.com/epam/ketcher/issues/7912) – Errors in console in dev mode "Cannot update a component" +- [#7770](https://github.com/epam/ketcher/issues/7770) – Pressing Right Scroll Arrow button of top menu cause exception to console +- [#7700](https://github.com/epam/ketcher/issues/7700) – System allow to delete monomers leaving connected bonds on the canvas +- [#7934](https://github.com/epam/ketcher/issues/7934) – Export to SVG Documets works wrong for unsplite nucleotides with dash symbole (-) in alias +- [#7649](https://github.com/epam/ketcher/issues/7649) – Undo/redo works wrong for monomer reposition corrected by snapping +- [#7783](https://github.com/epam/ketcher/issues/7783) – Microstructure disappears from canvas in Sequence mode when adding new sequence row +- [#7918](https://github.com/epam/ketcher/issues/7918) – Change the IDT alias format in the library file and adjust the logic for IDT aliases on preview +- [#7581](https://github.com/epam/ketcher/issues/7581) – Undo/Redo buttons become inactive and canvas Up, Bottom, Left and Right toolbars remain active inside Monomer Wizard +- [#7893](https://github.com/epam/ketcher/issues/7893) – System shouldn't allow to create monomers for selection with aromatic bonds to non-selected part +- [#7923](https://github.com/epam/ketcher/issues/7923) – Undo after deleting RNA preset connected to benzene ring leaves undeletable artifacts in Flex, Snake, and Sequence modes +- [#7914](https://github.com/epam/ketcher/issues/7914) – Microstructure not removed properly with Redo, duplicates on repeated Undo/Redo in Sequence mode +- [#7978](https://github.com/epam/ketcher/issues/7978) – Create monomer process changes atom of not related part of the molecule +- [#7979](https://github.com/epam/ketcher/issues/7979) – Pressing right Command key on Mac causes errors in DevTool Console (left Command works fine) +- [#8000](https://github.com/epam/ketcher/issues/8000) – Monomer Wizard allows creation of monomer with Functional Group +- [#8002](https://github.com/epam/ketcher/issues/8002) – No validation message shown for minimal monomer structure in Monomer Wizard +- [#8005](https://github.com/epam/ketcher/issues/8005) – Changing name for attachment points works wrong +- [#8040](https://github.com/epam/ketcher/issues/8040) – R2 attachment point is missing for vinU monomer +- [#8041](https://github.com/epam/ketcher/issues/8041) – System loads invdC monomer as unresolved monomer from AxoLabs +- [#8067](https://github.com/epam/ketcher/issues/8067) – Do not save added or updated monomer in local storage +- [#8068](https://github.com/epam/ketcher/issues/8068) – Unable to update monomer library via API on Remote Ketcher – input format error +- [#8070](https://github.com/epam/ketcher/issues/8070) – Existing Presets in the library disappear after adding new preset via API +- [#8123](https://github.com/epam/ketcher/issues/8123) – HELM (and IDT) alias collision is possible after library update +- [#8296](https://github.com/epam/ketcher/issues/8296) – Create Monomer tool can not be hidden by toolbar buttons config + +--- + +### Additional notes: +- Ketcher 3.9.0 has been built and tested with Indigo version 1.37 ([standalone](https://www.npmjs.com/package/indigo-ketcher/v/1.37.0) and [remote](https://hub.docker.com/layers/epmlsop/indigo-service/1.37.0/images/sha256-51e95fc6d5f2efafc921c5804ff54bbb846c2b4a4739e9419e4a2ef7471d01ef)). diff --git a/rst/newsfeed.rst b/rst/newsfeed.rst index 37710b1..f724421 100644 --- a/rst/newsfeed.rst +++ b/rst/newsfeed.rst @@ -7,6 +7,82 @@ News newsfeed release-notes/index +Ketcher 3.12.0 released +----------------------- + +*4 March 2026* + +We are glad to announce that a new stable version of Ketcher 3.12.0 is released. + +* |ketcher_3_12_0_notes| + +* |ketcher_3_12_0_downloads| + +.. |ketcher_3_12_0_notes| raw:: html + + Release Notes + +.. |ketcher_3_12_0_downloads| raw:: html + + Downloads + +Ketcher 3.11.0 released +----------------------- + +*4 March 2026* + +We are glad to announce that a new stable version of Ketcher 3.11.0 is released. + +* |ketcher_3_11_0_notes| + +* |ketcher_3_11_0_downloads| + +.. |ketcher_3_11_0_notes| raw:: html + + Release Notes + +.. |ketcher_3_11_0_downloads| raw:: html + + Downloads + +Ketcher 3.10.0 released +----------------------- + +*27 February 2026* + +We are glad to announce that a new stable version of Ketcher 3.10.0 is released. + +* |ketcher_3_10_0_notes| + +* |ketcher_3_10_0_downloads| + +.. |ketcher_3_10_0_notes| raw:: html + + Release Notes + +.. |ketcher_3_10_0_downloads| raw:: html + + Downloads + +Ketcher 3.9.0 released +---------------------- + +*27 February 2026* + +We are glad to announce that a new stable version of Ketcher 3.9.0 is released. + +* |ketcher_3_9_0_notes| + +* |ketcher_3_9_0_downloads| + +.. |ketcher_3_9_0_notes| raw:: html + + Release Notes + +.. |ketcher_3_9_0_downloads| raw:: html + + Downloads + Indigo and Bingo 1.40.0 released -------------------------------- @@ -107,6 +183,25 @@ We are happy to announce that a new version 1.37.0 of Indigo toolkit and Bingo i Bingo Downloads +Ketcher 3.8.0 released +---------------------- + +*17 October 2025* + +We are glad to announce that a new stable version of Ketcher 3.8.0 is released. + +* |ketcher_3_8_0_notes| + +* |ketcher_3_8_0_downloads| + +.. |ketcher_3_8_0_notes| raw:: html + + Release Notes + +.. |ketcher_3_8_0_downloads| raw:: html + + Downloads + Indigo and Bingo 1.36.0 released -------------------------------- diff --git a/rst/themes/lifescience-theme/json-ld_ketcher.html b/rst/themes/lifescience-theme/json-ld_ketcher.html index 8710aa7..ab7da3f 100644 --- a/rst/themes/lifescience-theme/json-ld_ketcher.html +++ b/rst/themes/lifescience-theme/json-ld_ketcher.html @@ -29,7 +29,7 @@ "JavaScript", "TypeScript" ], - "softwareVersion": "3.5.0", + "softwareVersion": "3.12.0", "operatingSystem": "All", "applicationSuite": "Cheminformatics" }