From b3f0438b13f7c475ade04702e4f16615241407fe Mon Sep 17 00:00:00 2001
From: qiyunzhu <4396343+qiyunzhu@users.noreply.github.com>
Date: Fri, 10 Jan 2025 17:14:18 +0000
Subject: [PATCH] Update from
https://github.com/scikit-bio/scikit-bio/commit/34d7bbf2fd3e467429b4cee55b95f02521cb5bcb
---
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.../generated/skbio.table.Table.to_tsv.html | 8 +-
.../skbio.table.Table.transform.html | 8 +-
.../skbio.table.Table.transpose.html | 4 +-
.../skbio.table.Table.update_ids.html | 4 +-
.../generated/skbio.table.Table.write.html | 4 +-
.../generated/skbio.table.example_table.html | 4 +-
.../skbio.tree.TreeNode.ancestors.html | 6 +-
.../generated/skbio.tree.TreeNode.append.html | 6 +-
.../skbio.tree.TreeNode.ascii_art.html | 6 +-
.../skbio.tree.TreeNode.assign_ids.html | 4 +-
.../skbio.tree.TreeNode.assign_supports.html | 6 +-
.../skbio.tree.TreeNode.bifurcate.html | 6 +-
.../generated/skbio.tree.TreeNode.bipart.html | 6 +-
.../skbio.tree.TreeNode.biparts.html | 6 +-
.../skbio.tree.TreeNode.cache_attr.html | 8 +-
.../skbio.tree.TreeNode.clear_caches.html | 4 +-
.../skbio.tree.TreeNode.compare_biparts.html | 6 +-
.../skbio.tree.TreeNode.compare_cophenet.html | 8 +-
.../skbio.tree.TreeNode.compare_rfd.html | 6 +-
.../skbio.tree.TreeNode.compare_subsets.html | 6 +-
.../skbio.tree.TreeNode.compare_wrfd.html | 8 +-
.../skbio.tree.TreeNode.cophenet.html | 10 +-
.../generated/skbio.tree.TreeNode.copy.html | 6 +-
.../generated/skbio.tree.TreeNode.count.html | 6 +-
.../skbio.tree.TreeNode.create_caches.html | 4 +-
.../skbio.tree.TreeNode.deepcopy.html | 4 +-
.../generated/skbio.tree.TreeNode.depth.html | 6 +-
.../skbio.tree.TreeNode.distance.html | 6 +-
.../generated/skbio.tree.TreeNode.extend.html | 6 +-
.../generated/skbio.tree.TreeNode.find.html | 6 +-
.../skbio.tree.TreeNode.find_all.html | 6 +-
.../skbio.tree.TreeNode.find_by_func.html | 6 +-
.../skbio.tree.TreeNode.find_by_id.html | 6 +-
...bio.tree.TreeNode.from_linkage_matrix.html | 6 +-
.../skbio.tree.TreeNode.from_taxdump.html | 8 +-
.../skbio.tree.TreeNode.from_taxonomy.html | 6 +-
.../skbio.tree.TreeNode.has_caches.html | 4 +-
.../skbio.tree.TreeNode.has_children.html | 6 +-
.../generated/skbio.tree.TreeNode.height.html | 6 +-
docs/dev/generated/skbio.tree.TreeNode.html | 4 +-
.../skbio.tree.TreeNode.index_tree.html | 4 +-
.../generated/skbio.tree.TreeNode.insert.html | 6 +-
.../skbio.tree.TreeNode.is_bifurcating.html | 6 +-
.../skbio.tree.TreeNode.is_root.html | 6 +-
.../generated/skbio.tree.TreeNode.is_tip.html | 6 +-
.../generated/skbio.tree.TreeNode.lca.html | 6 +-
.../skbio.tree.TreeNode.levelorder.html | 6 +-
.../skbio.tree.TreeNode.maxdist.html | 8 +-
.../skbio.tree.TreeNode.neighbors.html | 6 +-
.../skbio.tree.TreeNode.non_tips.html | 6 +-
...io.tree.TreeNode.observed_node_counts.html | 4 +-
.../generated/skbio.tree.TreeNode.path.html | 6 +-
.../generated/skbio.tree.TreeNode.pop.html | 6 +-
.../skbio.tree.TreeNode.postorder.html | 6 +-
...skbio.tree.TreeNode.pre_and_postorder.html | 6 +-
.../skbio.tree.TreeNode.preorder.html | 6 +-
.../generated/skbio.tree.TreeNode.prune.html | 6 +-
.../generated/skbio.tree.TreeNode.read.html | 4 +-
.../generated/skbio.tree.TreeNode.remove.html | 6 +-
.../skbio.tree.TreeNode.remove_by_func.html | 6 +-
.../skbio.tree.TreeNode.remove_deleted.html | 6 +-
.../generated/skbio.tree.TreeNode.root.html | 6 +-
.../skbio.tree.TreeNode.root_at.html | 6 +-
.../skbio.tree.TreeNode.root_at_midpoint.html | 6 +-
.../skbio.tree.TreeNode.root_by_outgroup.html | 6 +-
.../generated/skbio.tree.TreeNode.shear.html | 6 +-
.../skbio.tree.TreeNode.shuffle.html | 6 +-
.../skbio.tree.TreeNode.siblings.html | 6 +-
.../generated/skbio.tree.TreeNode.subset.html | 6 +-
.../skbio.tree.TreeNode.subsets.html | 6 +-
.../skbio.tree.TreeNode.subtree.html | 4 +-
.../generated/skbio.tree.TreeNode.tips.html | 6 +-
.../skbio.tree.TreeNode.to_array.html | 6 +-
.../skbio.tree.TreeNode.to_taxonomy.html | 6 +-
.../skbio.tree.TreeNode.total_length.html | 6 +-
.../skbio.tree.TreeNode.traverse.html | 6 +-
.../generated/skbio.tree.TreeNode.unpack.html | 6 +-
.../skbio.tree.TreeNode.unpack_by_func.html | 6 +-
.../generated/skbio.tree.TreeNode.unroot.html | 6 +-
.../skbio.tree.TreeNode.unrooted_copy.html | 6 +-
...skbio.tree.TreeNode.unrooted_deepcopy.html | 4 +-
.../skbio.tree.TreeNode.unrooted_move.html | 6 +-
.../generated/skbio.tree.TreeNode.write.html | 4 +-
docs/dev/generated/skbio.tree.bme.html | 8 +-
docs/dev/generated/skbio.tree.gme.html | 8 +-
.../generated/skbio.tree.majority_rule.html | 6 +-
docs/dev/generated/skbio.tree.nj.html | 8 +-
docs/dev/generated/skbio.tree.nni.html | 10 +-
docs/dev/generated/skbio.tree.path_dists.html | 8 +-
docs/dev/generated/skbio.tree.rf_dists.html | 6 +-
docs/dev/generated/skbio.tree.upgma.html | 6 +-
docs/dev/generated/skbio.tree.wrf_dists.html | 8 +-
.../generated/skbio.util.PlottableMixin.html | 4 +-
docs/dev/generated/skbio.util.aliased.html | 4 +-
...o.util.assert_data_frame_almost_equal.html | 4 +-
....util.assert_ordination_results_equal.html | 4 +-
.../skbio.util.cardinal_to_ordinal.html | 6 +-
.../generated/skbio.util.classonlymethod.html | 4 +-
.../generated/skbio.util.classproperty.html | 4 +-
docs/dev/generated/skbio.util.deprecated.html | 4 +-
.../generated/skbio.util.find_duplicates.html | 4 +-
.../generated/skbio.util.get_data_path.html | 4 +-
docs/dev/generated/skbio.util.get_rng.html | 4 +-
docs/dev/generated/skbio.util.overrides.html | 4 +-
.../generated/skbio.util.params_aliased.html | 4 +-
.../skbio.util.register_aliases.html | 6 +-
docs/dev/generated/skbio.util.safe_md5.html | 8 +-
.../generated/skbio.workflow.Workflow.html | 4 +-
...io.workflow.Workflow.initialize_state.html | 4 +-
docs/dev/generated/skbio.workflow.method.html | 4 +-
.../generated/skbio.workflow.requires.html | 4 +-
docs/dev/genindex.html | 4 +-
docs/dev/index.html | 4 +-
docs/dev/io.html | 10 +-
docs/dev/metadata.html | 4 +-
docs/dev/py-modindex.html | 4 +-
docs/dev/search.html | 4 +-
docs/dev/searchindex.js | 2 +-
docs/dev/sequence.html | 6 +-
docs/dev/stats.html | 4 +-
docs/dev/table.html | 4 +-
docs/dev/tree.html | 8 +-
docs/dev/util.html | 4 +-
docs/dev/workflow.html | 30 +--
519 files changed, 1690 insertions(+), 1693 deletions(-)
diff --git a/docs/dev/_static/pygments.css b/docs/dev/_static/pygments.css
index 012e6a00a..d7dd57783 100644
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+html[data-theme="dark"] .highlight .s1 { color: #ABE338 } /* Literal.String.Single */
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diff --git a/docs/dev/alignment.html b/docs/dev/alignment.html
index 77f47c6e7..2ba1ba88d 100644
--- a/docs/dev/alignment.html
+++ b/docs/dev/alignment.html
@@ -31,7 +31,7 @@
-
+
@@ -754,7 +754,7 @@ Tutorial