fix: several small bugs found in a static-analysis sweep#234

Merged

mmore500 merged 13 commits into

jeetsukumaran:mainfrom

steps-re:fix/static-analysis-sweep

Jul 13, 2026

Commits on Jul 12, 2026

fix: reassigning Node.edge no longer detaches node from its parent
steps-re
committed
fix: summarize_node_ages_on_tree honors is_bipartitions_updated
steps-re
committed
fix: collapse_negative_edges no longer crashes in summarize_node_ages_on_tree
steps-re
committed
fix: unweighted SES statistics now actually randomize the null model
steps-re
committed
fix: simulate_discrete_chars() now honors the root_states argument
steps-re
committed
fix: CharacterMatrix.concatenate() error message substitutes matrix index
steps-re
committed
fix: CharacterMatrix.concatenate() no longer hangs on duplicate labels
steps-re
committed
fix: DiscreteCharacterMatrix.append_taxon_sequence() no longer crashes
steps-re
committed
fix: NormalizedBitmaskDict no longer corrupts OrderedDict iteration
steps-re
committed
fix: Taxon(other_taxon) now preserves comments
steps-re
committed
fix: Node.distance_from_root() no longer crashes on None parent edge length
steps-re
committed

Commits on Jul 13, 2026

test: address review — fix docstrings, drop over-complex tests, verify collapse behavior

steps-re
authored and
mmore500
committed
revert: split Node.edge parent/children fix into its own branch

steps-re
authored and
mmore500
committed