Add changelog entry

Author: corneliusroemer

CHANGES.md

@@ -7,7 +7,12 @@
 * export v2: we now limit numerical precision on floats in the JSON. This should not change how a dataset is displayed / interpreted in Auspice but allows the gzipped & minimised JSON filesize to be reduced by around 30% (dataset-dependent). [#1512][] (@jameshadfield)
 * traits, export v2: `augur traits` now reports all confidence values above 0.1% rather than limiting them to the top 4 results. There is no change in the eventual Auspice dataset as `augur export v2` will still only consider the top 4. [#1512][] (@jameshadfield)
 
+### Bug Fixes
+
+* tree: When using iqtree, check for all synonyms of default args when detecting potential conflicts, e.g. `--threads-max` is equivalent to `-ntmax`. Previously, we were only checking for the latter. Also use new, preferred IQtree2 option names (e.g. `--polytomy` instead of `-czb` etc.). [#1547][] (@corneliusroemer)
+
 [#1512]: https://github.com/nextstrain/augur/pull/1512
+[#1547]: https://github.com/nextstrain/augur/pull/1547
 
 
 ## 25.1.1 (15 July 2024)