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Bump indigo to 1.25.0 (#135)
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AliaksandrDziarkach authored Nov 18, 2024
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3 changes: 2 additions & 1 deletion rst/download/bingo.rst
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.. toctree::
:maxdepth: 1

bingo/bingo-1.24.0.rst
bingo/bingo-1.25.0.rst


Older releases
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.. toctree::
:maxdepth: 1

bingo/bingo-1.24.0.rst
bingo/bingo-1.23.0.rst
bingo/bingo-1.22.0.rst
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45 changes: 45 additions & 0 deletions rst/download/bingo/bingo-1.25.0.rst
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Bingo 1.25.0
------------

The changelog is available `on this page <../../indigo/release-notes/indigo-1.25.0.html>`__

.. list-table::
:header-rows: 1
:stub-columns: 1
:widths: 28 24 24 24

* -
- |image0| Linux
- |image1| Windows
- |image2| Mac OS
* - Oracle
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-oracle-linux-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-oracle-windows-msvc-x86_64.zip>`__
- binaries upon request.
* - PostgreSQL 15
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-15-linux-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-15-windows-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-15-macos-x86_64.zip>`__
* - PostgreSQL 14
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-14-linux-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-14-windows-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-14-macos-x86_64.zip>`__
* - PostgreSQL 13
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-13-linux-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-13-windows-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-13-macos-x86_64.zip>`__
* - PostgreSQL 12
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-12-linux-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-12-windows-x86_64.zip>`__
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-postgres-12-macos-x86_64.zip>`__
* - Microsoft SQL Server
- \-
- `64-bit <https://lifescience.opensource.epam.com/downloads/bingo-1.25.0/bingo-sqlserver-windows-latest-x86_64.zip>`__
- \-

`Source code on GitHub <http://github.com/epam/indigo>`__


.. |image0| image:: ../../assets/Linux.png
.. |image1| image:: ../../assets/Windows.png
.. |image2| image:: ../../assets/AppleSZ.png
3 changes: 2 additions & 1 deletion rst/download/indigo.rst
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.. toctree::
:maxdepth: 1

indigo/indigo-1.24.0.rst
indigo/indigo-1.25.0.rst

Older releases
--------------

.. toctree::
:maxdepth: 1

indigo/indigo-1.24.0.rst
indigo/indigo-1.23.0.rst
indigo/indigo-1.22.0.rst
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.. toctree::
:hidden:
:includehidden:

../../indigo/release-notes/index.rst


Indigo 1.25.0
-------------

Language Bindings
~~~~~~~~~~~~~~~~~

.. list-table::
:header-rows: 0
:stub-columns: 1

* - |p-icon| Python
- `indigo-python.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-python.zip>`__
* - |j-icon| Java
- `indigo-java.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-java.zip>`__
* - |c-icon| .NET
- `indigo-dotnet.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-dotnet.zip>`__
* - |n-icon| Native Libraries in one archive
- `indigo-native-shared-libs.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-native-shared-libs.zip>`__


Platform/CPU Bindings
~~~~~~~~~~~~~~~~~~~~~

.. list-table::
:header-rows: 1
:stub-columns: 1

* -
- |image0| Linux
- |image1| Windows
- |image2| Mac OS
* - |n-icon| Native Libraries x64
- `indigo-libs-linux-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-linux-x86_64.zip>`__
- `indigo-libs-windows-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-windows-x86_64.zip>`__
- `indigo-libs-macos-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-macos-x86_64.zip>`__
* -
-
- `indigo-libs-windows-mingw-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-windows-mingw-x86_64.zip>`__
-
* - |n-icon| Native Libraries ARM64
- `indigo-libs-linux-aarch64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-linux-aarch64.zip>`__
- \-
- `indigo-libs-macos-aarch64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-macos-aarch64.zip>`__
* - |n-icon| Native Libraries i386
- \-
- `indigo-libs-windows-i386.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-libs-windows-i386.zip>`__
- \-
* - |n-icon| Utilities x64
- `indigo-utils-linux-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-utils-linux-x86_64.zip>`__
- `indigo-utils-windows-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-utils-windows-x86_64.zip>`__
- `indigo-utils-macos-x86_64.zip <https://lifescience.opensource.epam.com/downloads/indigo-1.25.0/indigo-utils-macos-x86_64.zip>`__

Source code
~~~~~~~~~~~

`Source code zip <https://github.com/epam/Indigo/archive/indigo-1.25.0.zip>`__

`Repository on GitHub <https://github.com/epam/Indigo>`__


NuGet Repository
~~~~~~~~~~~~~~~~

Indigo .NET packages available at `Nuget <https://www.nuget.org/packages/Indigo.Net/>`__

Just add ``Indigo.Net`` as a dependency into the project.

PyPi package
~~~~~~~~~~~~

Indigo Python SDK can be found at `PyPi <https://pypi.org/project/epam.indigo/>`__

One can install the Indigo library using *pip* utility


.. code-block:: xml
pip install epam.indigo
.. |image0| image:: ../../assets/Linux.png
.. |image1| image:: ../../assets/Windows.png
.. |image2| image:: ../../assets/AppleSZ.png
.. |image3| image:: ../../assets/globe.png
.. |p-icon| image:: ../../assets/indigo/python-icon.png
.. |j-icon| image:: ../../assets/indigo/java-icon.png
.. |c-icon| image:: ../../assets/indigo/csharp-icon.png
.. |n-icon| image:: ../../assets/indigo/native-icon.png
.. |w-icon| image:: ../../assets/indigo/wasm-icon.png
1 change: 1 addition & 0 deletions rst/indigo/release-notes/index.rst
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.. toctree::
:maxdepth: 2

indigo-1.25.0
indigo-1.24.0
indigo-1.23.0
indigo-1.22.0
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38 changes: 38 additions & 0 deletions rst/indigo/release-notes/indigo-1.25.0.md
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# Indigo 1.25.0
Released 2024-11-18

## Features
* [2236](https://github.com/epam/Indigo/issues/2236) Import/export multi-tails in KET
* [2162](https://github.com/epam/Indigo/issues/2162) Add support for rendering embedded SVGs while exporting to PNG
* [2129](https://github.com/epam/Indigo/issues/2129) Render Multi-tail Arrows for Pathway Reactions in PNG and SVG
* [2176](https://github.com/epam/Indigo/issues/2176) add ACS style reaction layout
* [2209](https://github.com/epam/Indigo/issues/2209) SVG image support in CDX/CDXML
* [2237](https://github.com/epam/Indigo/issues/2237) Save multi reactions (pathway, single, edge cases) to RDF
* [2175](https://github.com/epam/Indigo/issues/2175) Adjust the rendering of PNG and SVG formats for ACS style

## Bugfixes and improvements
* [2293](https://github.com/epam/Indigo/issues/2293) Export IDT doesn't work for natural ambiguous monomers
* [2383](https://github.com/epam/Indigo/issues/2383) update lunasvg
* [2309](https://github.com/epam/Indigo/issues/2309) Update layout for pathway reaction on canvas
* [1989](https://github.com/epam/Indigo/issues/1989) Convert api does not recognise format during autodetection
* [2070](https://github.com/epam/Indigo/issues/2070) Settings for the "attachment point tool" don't update with changed pixel settings
* [2457](https://github.com/epam/Indigo/issues/2457) The reaction is not in the center of the picture after saved in png (svg)
* [2444](https://github.com/epam/Indigo/issues/2444) The thickness of the arrow is incorrect when saving to png(svg)
* [2447](https://github.com/epam/Indigo/issues/2447) single up and single down bonds are displayed incorrect when save to PNG(svg)
* [2257](https://github.com/epam/Indigo/issues/2257) Unable to save CHEM SS3 to IDT format
* [2312](https://github.com/epam/Indigo/issues/2312) Export of ambiguous monomers doesn't work (error appears) to any export format (even to SVG/PNG) except KET
* [2433](https://github.com/epam/Indigo/issues/2433) Issues with Saving and Opening Structures with Multi-Tailed Arrow in CDX and CDXML Formats
* [2512](https://github.com/epam/Indigo/issues/2512) Equilibrium Half Arrows are displayed incorrect when saved to PNG (svg) by default size
* [2217](https://github.com/epam/Indigo/issues/2217) The wrong direction of the arrows when exporting from CDXML (or CDX, base64 cdx) format and two retrosynthetic arrows
* [2422](https://github.com/epam/Indigo/issues/2422) Indigo functions doesn't work prorerly: Aromatize, Dearomatize, Layout, Clean Up, Hydrogens, Auto-Mapping Tool
* [2458](https://github.com/epam/Indigo/issues/2458) The reaction with catalysts is displayed incorrect with ACS style setting and after layout
* [2440](https://github.com/epam/Indigo/issues/2440) System shouldn't allow user to export alternatives ambiguous monomers to IDT (since only mixtures are supported)
* [2331](https://github.com/epam/Indigo/issues/2331) System should throw an error in case of wrong IUBcode
* [2122](https://github.com/epam/Indigo/issues/2122) Sugar R should not save in the IDT format
* [2446](https://github.com/epam/Indigo/issues/2446) Sub font size is incorrect when save to png (svg)
* [2407](https://github.com/epam/Indigo/issues/2407) The ordering of branches of cascade reactions and reactions themselves should be the same on Load/Save from/to RDF
* [2478](https://github.com/epam/Indigo/issues/2478) The arrow is displayed incorrect when import from rxn file
* [2603](https://github.com/epam/Indigo/issues/2603) Unknown 'a' CIP stereochemistry cause error in CDXML parser


**Full Changelog**: https://github.com/epam/Indigo/compare/indigo-1.24.0-rc.1...indigo-1.25.0
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newsfeed
release-notes/index

Indigo and Bingo 1.25.0 released
--------------------------------

*18 November 2024*

We are happy to announce that a new version 1.25.0 of Indigo toolkit and Bingo is released.

* |indigo_1_25_0_notes|

* |indigo_1_25_0_downloads|

* |bingo_1_25_0_downloads|

.. |indigo_1_25_0_notes| raw:: html

<a href="indigo/release-notes/indigo-1.25.0.html" target="_blank">Release Notes</a>

.. |indigo_1_25_0_downloads| raw:: html

<a href="download/indigo/indigo-1.25.0.html" target="_blank">Indigo Downloads</a>

.. |bingo_1_25_0_downloads| raw:: html

<a href="download/bingo/bingo-1.25.0.html" target="_blank">Bingo Downloads</a>

Ketcher 2.25.0 released
-----------------------

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