fix-issues-add-new-features #59
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…change - add the feature to load antimony strings (without the need to convert them into SBML beforehand) - the create_alias function that gets a list of reaction and species maps and create alias for all of them - add 'align_circle' function on the 'reaction_list' level' - make sure all the negative set values for positions are updated to 0 - update the default style
- The dimensions of the Reaction bounding box is no longer tied to the text size
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This PR includes updates across several areas of the codebase:
Test Updates: Adjusted existing tests to reflect recent changes in rendering behavior and default settings.
Paper Examples: Refreshed to align with the latest features and style updates.
Feature Additions & Fixes:
Enabled loading of Antimony strings directly, removing the SBML conversion requirement.
Introduced create_alias for batch alias creation for reactions and species.
Added align_circle function at the reaction_list level.
Font sizes now correctly update with species size changes.
Set all negative position values to zero to improve layout integrity.
Reaction bounding box dimensions are now independent of text size.
Update extents is no longer enabled by default.
Updated default style for improved clarity.
These changes enhance usability, maintainability, and the overall visual consistency of the application.