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CHANGELOG.md

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a16

  • Add a seed parameter to set a single seed for a tileset.

a15

  • Allow a default seed offset for simulations to be included in seed specifications (if implemented by the seed class).
  • Preliminary support for DX tiles and older files.

a14

  • Internal SVG drawing routines, removing drawSvg_svgy and lxml dependencies.
  • Xgrow release dependency.
  • Support for stickydesign-calculated sequence-dependent glues for xgrow/rgrow export (fixes regression from 1.0).
  • More SST motifs.
  • More flatish motifs (seeds, extensions on single tiles, etc).
  • Early support for rgrow export.
  • Improved error messages.

a13

  • Python 3.11 compatibility.

a12

  • Mix-to-tileset code moved to TileSet.

Previous

  • MultiFixedConcentration allows a min_volume setting, which will raise an error of the minimum volume to be transferred for any component is too low.
  • Volume and concentration settings can now be changed, not just initialized, as strings.
  • Reference data for mixes is now its own class, Reference, and rounds to 1e-6 nM.
  • Mixes now use Decimal instead of floats throughout for units, solving floating point errors.
  • Formatting for mix table entries now takes place in MixLine.

v1.1.0

Fixes broken workaround for ruamel.yaml bug now fixed upstream, adds double-tile sensitivity, includes seed file to make xor example work.