update libpll (fix asc. bias with tip-inner) + typos

ddarriba · Nov 27, 2019 · 7a0715a · 7a0715a
1 parent 8295985
commit 7a0715a
Show file tree

Hide file tree

Showing 3 changed files with 5 additions and 5 deletions.
diff --git a/libs/libpll b/libs/libpll
diff --git a/src/optimize/pll_optimize.c b/src/optimize/pll_optimize.c
@@ -947,7 +947,7 @@ static int recomp_iterative (pll_newton_tree_params_t * params,
  * reproducible if several branches are optimized in parallel.
  *
  * @param[in,out]  partition         the PLL partition structure
- * @param[in,out]  tree              the PLL unrotted tree structure
+ * @param[in,out]  tree              the PLL unrooted tree structure
  * @param  params_indices    the indices of the parameter sets
  * @param  branch_length_min lower bound for branch lengths
  * @param  branch_length_max upper bound for branch lengths
@@ -1102,7 +1102,7 @@ PLL_EXPORT double pllmod_opt_optimize_branch_lengths_local (
  * Check `pllmod_opt_optimize_branch_lengths_local` documentation.
  *
  * @param[in,out]  partition         the PLL partition structure
- * @param[in,out]  tree              the PLL unrotted tree structure
+ * @param[in,out]  tree              the PLL unrooted tree structure
  * @param  params_indices    the indices of the parameter sets
  * @param  branch_length_min lower bound for branch lengths
  * @param  branch_length_max upper bound for branch lengths
@@ -1895,7 +1895,7 @@ PLL_EXPORT double pllmod_opt_optimize_branch_lengths_local_multi (
         assert(new_loglikelihood - loglikelihood > new_loglikelihood * BETTER_LL_TRESHOLD);
       else if (opt_method == PLLMOD_OPT_BLO_NEWTON_FALLBACK)
       {
-        // reset branch lenghts
+        // reset branch lengths
         params.opt_method = PLLMOD_OPT_BLO_NEWTON_SAFE;
         iters = (unsigned int) max_iters;
       }

diff --git a/src/tree/pll_tree.h b/src/tree/pll_tree.h
@@ -416,7 +416,7 @@ PLL_EXPORT unsigned int pllmod_utree_rf_distance(pll_unode_t * t1,
 PLL_EXPORT int pllmod_utree_consistency_check(pll_utree_t * t1,
                                               pll_utree_t * t2);
 
-/* if 2 different trees are parsed from newick node ids migh have been set
+/* if 2 different trees are parsed from newick node ids might have been set
    in a different order, so this function sets node ids in t2 such that
    node ids and tip labels agree in both trees */
 PLL_EXPORT int pllmod_utree_consistency_set(pll_utree_t * t1,