Technical Note T36-2025: BIOVIA Pipeline Pilot Chemistry SDK 2025 SP1 | Support

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Program

BIOVIA Pipeline Pilot Chemistry SDK

Operating System

All supported operating systems

Description

We are providing this Technical Note to inform you about the release of BIOVIA Pipeline Pilot Chemistry SDK 2025 SP1 which includes the following enhancements and fixed defects:

Enhancements

This release of BIOVIA Pipeline Pilot Chemistry SDK includes the following enhancements.

Description Areas Affected Risk Level Jira Issue ID
Improved the 2D layout of molecules with Markush bonds and Haptic bonds. PCHE: Chemistry Depiction, PCHE: Pipette Low PCHE-6862
Added a new component, HELM to PNG, as a prototype to allow server-side generation of Pipette Biosketcher monomer view images. PCHE: Biologics, PCHE: Chemistry Depiction Low PCHE-7896
Added support for “No Structure” (empty molecules). PCHE: Pipette Low PCHE-8407
Added support for data sgroups for atoms, bonds, and repeat units. PCHE: Pipette Low PCHE-8408
Pipette Monomer Review now allows you to create Ribose derivatives with R4 groups. PCHE: Pipette Low PCHE-8416
You can now specify axial stereochemistry. PCHE: Chemical Perception Low PCHE-8417
Sketching and positioning of salt fragments is improved in molecules and reactions. PCHE: Pipette Low PCHE-8501
You can now enter a sequence in the form of a string with residue letters. PCHE: Biologics, PCHE: Pipette Low PCHE-8520
Improved salt depiction by stacking vertically to optimize use of space. PCHE: Pipette Low PCHE-8542
Improved Pipette Biosketcher sequence view to show reaction components horizontally instead of vertically. PCHE: Biologics Low PCHE-8543
Added support for pasting reaction RXN files with sequences represented by Full CTAB expanded residues. PCHE: Pipette Low PCHE-8545
Added full ctab molfile support to the Pipette Biosketcher when using SCSR monomers. PCHE: Pipette Low PCHE-8546

Additional features and fixes:

  • Support data sgroups for atoms, bonds and repeat units.
  • Fixed editing the chemistry of a FullCTAB monomer.
  • Info dialog for a FullCTAB monomer shows a chemistry image.
  • Ensure SCSR FullCTAB with a monomer attached to an abbreviation is shown correctly.
  • Ensure all R3-R3 connections are shown in the sequence view for reactions.
  • Improved appearance of FullCTAB files from Draw when they do not contain a SEQID.
  • Properties can now be removed in the add step dialog.
  • Ensure SCSR for RNA with complimentary strands is always written correctly.
 PCHE: Pipette Low PCHE-8719

Fixed Defects

This release of BIOVIA Pipeline Pilot Chemistry SDK includes the following fixed defects.

Severity Description Areas Affected Risk Defect
Major Improved depiction of a linker between two peptides in some circumstances. PCHE: Pipette 1 (Low) PCHE-8656
Major Fixed an issue where haptic bonds in reactions did not work correctly. PCHE: Chemical Perception, PCHE: Chemistry Depiction, PCHE: PPChemAPI 1 (Low) PCHE-8716
Minor Fixed the depiction of Markush bonds in brackets, and variable repeat units. The round brackets are converted to square brackets. PCHE: Chemistry Depiction 1 (Low) PCHE-6148
Minor Improved rendering and layout of molecules and reactions with haptic systems. PCHE: Chemical Perception, PCHE: Chemistry Depiction, PCHE: PPChemAPI 1 (Low) PCHE-7778
Minor Pipette Sketcher no longer allows adding enhanced stereochemistry labels to a tetrahedral stereo center that is (only) marked with a single either bond. PCHE: Pipette 1 (Low) PCHE-8587

Resolution                                                                         

BIOVIA Pipeline Pilot Chemistry SDK 2025 SP1 was released in June 2025 and is available for download at https://software.3ds.com under BIOVIA products:

Product line: Lab, Scientific and Content Solutions

Release: BIOVIA 2025

Level: BIOVIA 2025 Refresh 2

Fixes for this level: –

How to contact BIOVIA Support

If you have any questions, please contact BIOVIA Support.

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