lingpy / lingpy

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src/lingpy/compare/phylogeny.py src/lingpy/compare/strings.py src/lingpy/compare/lexstat.py src/lingpy/compare/partial.py src/lingpy/compare/_phylogeny/utils.py src/lingpy/compare/_phylogeny/polygon.py src/lingpy/compare/_phylogeny/convex_hull.py src/lingpy/compare/_phylogeny/_settings.py src/lingpy/compare/sanity.py src/lingpy/compare/_structure.py src/lingpy/compare/util.py src/lingpy/algorithm/cython/_calign.py src/lingpy/algorithm/cython/_talign.py src/lingpy/algorithm/cython/_malign.py src/lingpy/algorithm/cython/_cluster.py src/lingpy/algorithm/cython/_misc.py src/lingpy/algorithm/clustering.py src/lingpy/algorithm/_tree.py src/lingpy/algorithm/extra.py src/lingpy/algorithm/cluster_util.py src/lingpy/algorithm/__init__.py src/lingpy/align/multiple.py src/lingpy/align/sca.py src/lingpy/align/_align/confidence.py src/lingpy/align/pairwise.py src/lingpy/align/__init__.py src/lingpy/thirdparty/cogent/tree.py src/lingpy/thirdparty/cogent/newick.py src/lingpy/thirdparty/cogent/__init__.py src/lingpy/thirdparty/linkcomm/link_clustering.py src/lingpy/thirdparty/linkcomm/__init__.py src/lingpy/thirdparty/__init__.py src/lingpy/convert/plot.py src/lingpy/convert/html.py src/lingpy/convert/strings.py src/lingpy/convert/graph.py src/lingpy/convert/tree.py src/lingpy/convert/cldf.py src/lingpy/sequence/sound_classes.py src/lingpy/sequence/ngrams.py src/lingpy/sequence/smoothing.py src/lingpy/sequence/profile.py src/lingpy/sequence/generate.py src/lingpy/sequence/__init__.py src/lingpy/basic/wordlist.py src/lingpy/basic/ops.py src/lingpy/basic/parser.py src/lingpy/basic/tree.py src/lingpy/basic/__init__.py src/lingpy/evaluate/apa.py src/lingpy/evaluate/acd.py src/lingpy/evaluate/alr.py src/lingpy/evaluate/__init__.py src/lingpy/read/qlc.py src/lingpy/read/csv.py src/lingpy/read/starling.py src/lingpy/read/phylip.py src/lingpy/cli.py src/lingpy/data/derive.py src/lingpy/data/model.py src/lingpy/data/ipa/sampa.py src/lingpy/data/__init__.py src/lingpy/meaning/colexification.py src/lingpy/util.py src/lingpy/log.py src/lingpy/settings.py src/lingpy/basictypes.py src/lingpy/config.py src/lingpy/cache.py src/lingpy/__init__.py src/lingpy/_settings.py tests/compare/test_lexstat.py tests/compare/test_compare_strings.py tests/compare/test__phylogeny.py tests/compare/test_phylogeny.py tests/compare/test_partial.py tests/compare/test_sanity.py tests/compare/test__structure.py tests/sequence/test_sound_classes.py tests/sequence/test_ngrams.py tests/sequence/test_smoothing.py tests/sequence/test_generate.py tests/sequence/test_profile.py tests/algorithm/test_cython.py tests/algorithm/test_clustering.py tests/algorithm/test_extra.py tests/algorithm/test__tree.py tests/algorithm/test_cluster_util.py tests/convert/test_strings.py tests/convert/test_plot.py tests/convert/test_cldf_methods.py tests/convert/test_html.py tests/convert/test_cldf.py tests/convert/test_convert_tree.py tests/convert/test_graph.py tests/basic/test_wordlist.py tests/basic/test_ops.py tests/basic/test_parser.py tests/basic/test_tree.py tests/align/test_sca.py tests/align/test_multiple.py tests/align/test_pairwise.py tests/thirdparty/test_cogent.py tests/thirdparty/test_linkcomm.py tests/read/test_csv.py tests/read/test_qlc.py tests/read/test_phylip.py tests/read/test_starling.py tests/evaluate/test_acd.py tests/evaluate/test_apa.py tests/evaluate/test_alr.py tests/test_cli.py tests/test_util.py tests/meaning/test_colexification.py tests/test_basictypes.py tests/test_log.py tests/data/test_derive.py tests/data/test_sound_class_models.py tests/test_config.py tests/test_settings.py tests/test_cache.py tests/conftest.py tests/test_misc.py

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Files Coverage
src/lingpy/__init__.py 100.00%
src/lingpy/_settings.py 100.00%
src/lingpy/algorithm/__init__.py 100.00%
src/lingpy/algorithm/_tree.py 96.19%
src/lingpy/algorithm/cluster_util.py 100.00%
src/lingpy/algorithm/clustering.py 89.87%
src/lingpy/algorithm/cython/_calign.py 97.93%
src/lingpy/algorithm/cython/_cluster.py 92.34%
src/lingpy/algorithm/cython/_malign.py 92.34%
src/lingpy/algorithm/cython/_misc.py 80.00%
src/lingpy/algorithm/cython/_talign.py 97.79%
src/lingpy/algorithm/extra.py 75.00%
src/lingpy/align/__init__.py 100.00%
src/lingpy/align/_align/confidence.py 74.07%
src/lingpy/align/multiple.py 85.15%
src/lingpy/align/pairwise.py 94.85%
src/lingpy/align/sca.py 78.38%
src/lingpy/basic/__init__.py 100.00%
src/lingpy/basic/ops.py 92.98%
src/lingpy/basic/parser.py 96.76%
src/lingpy/basic/tree.py 100.00%
src/lingpy/basic/wordlist.py 89.15%
src/lingpy/basictypes.py 72.55%
src/lingpy/cache.py 100.00%
src/lingpy/cli.py 85.59%
src/lingpy/compare/_phylogeny/_settings.py 100.00%
src/lingpy/compare/_phylogeny/convex_hull.py 75.86%
src/lingpy/compare/_phylogeny/polygon.py 52.87%
src/lingpy/compare/_phylogeny/utils.py 37.86%
src/lingpy/compare/_structure.py 100.00%
src/lingpy/compare/lexstat.py 91.71%
src/lingpy/compare/partial.py 62.95%
src/lingpy/compare/phylogeny.py 81.17%
src/lingpy/compare/sanity.py 49.04%
src/lingpy/compare/strings.py 99.38%
src/lingpy/compare/util.py 100.00%
src/lingpy/config.py 100.00%
src/lingpy/convert/cldf.py 100.00%
src/lingpy/convert/graph.py 82.32%
src/lingpy/convert/html.py 90.82%
src/lingpy/convert/plot.py 77.94%
src/lingpy/convert/strings.py 96.33%
src/lingpy/convert/tree.py 100.00%
src/lingpy/data/__init__.py 100.00%
src/lingpy/data/derive.py 89.34%
src/lingpy/data/ipa/sampa.py 100.00%
src/lingpy/data/model.py 91.53%
src/lingpy/evaluate/__init__.py 100.00%
src/lingpy/evaluate/acd.py 100.00%
src/lingpy/evaluate/alr.py 100.00%
src/lingpy/evaluate/apa.py 89.27%
src/lingpy/log.py 100.00%
src/lingpy/meaning/colexification.py 99.07%
src/lingpy/read/csv.py 100.00%
src/lingpy/read/phylip.py 100.00%
src/lingpy/read/qlc.py 98.83%
src/lingpy/read/starling.py 100.00%
src/lingpy/sequence/__init__.py 100.00%
src/lingpy/sequence/generate.py 94.12%
src/lingpy/sequence/ngrams.py 98.18%
src/lingpy/sequence/profile.py 93.33%
src/lingpy/sequence/smoothing.py 64.24%
src/lingpy/sequence/sound_classes.py 88.95%
src/lingpy/settings.py 100.00%
src/lingpy/thirdparty/__init__.py 100.00%
src/lingpy/thirdparty/cogent/__init__.py 100.00%
src/lingpy/thirdparty/cogent/newick.py 87.05%
src/lingpy/thirdparty/cogent/tree.py 84.28%
src/lingpy/thirdparty/linkcomm/__init__.py 100.00%
src/lingpy/thirdparty/linkcomm/link_clustering.py 100.00%
src/lingpy/util.py 100.00%
tests/algorithm/test__tree.py 100.00%
tests/algorithm/test_cluster_util.py 100.00%
tests/algorithm/test_clustering.py 100.00%
tests/algorithm/test_cython.py 100.00%
tests/algorithm/test_extra.py 100.00%
tests/align/test_multiple.py 100.00%
tests/align/test_pairwise.py 100.00%
tests/align/test_sca.py 100.00%
tests/basic/test_ops.py 100.00%
tests/basic/test_parser.py 100.00%
tests/basic/test_tree.py 100.00%
tests/basic/test_wordlist.py 100.00%
tests/compare/test__phylogeny.py 70.13%
tests/compare/test__structure.py 100.00%
tests/compare/test_compare_strings.py 100.00%
tests/compare/test_lexstat.py 99.31%
tests/compare/test_partial.py 100.00%
tests/compare/test_phylogeny.py 100.00%
tests/compare/test_sanity.py 100.00%
tests/conftest.py 100.00%
tests/convert/test_cldf.py 100.00%
tests/convert/test_cldf_methods.py 100.00%
tests/convert/test_convert_tree.py 100.00%
tests/convert/test_graph.py 100.00%
tests/convert/test_html.py 100.00%
tests/convert/test_plot.py 100.00%
tests/convert/test_strings.py 100.00%
tests/data/test_derive.py 100.00%
tests/data/test_sound_class_models.py 100.00%
tests/evaluate/test_acd.py 100.00%
tests/evaluate/test_alr.py 100.00%
tests/evaluate/test_apa.py 100.00%
tests/meaning/test_colexification.py 100.00%
tests/read/test_csv.py 100.00%
tests/read/test_phylip.py 100.00%
tests/read/test_qlc.py 100.00%
tests/read/test_starling.py 100.00%
tests/sequence/test_generate.py 100.00%
tests/sequence/test_ngrams.py 100.00%
tests/sequence/test_profile.py 100.00%
tests/sequence/test_smoothing.py 95.79%
tests/sequence/test_sound_classes.py 100.00%
tests/test_basictypes.py 100.00%
tests/test_cache.py 100.00%
tests/test_cli.py 100.00%
tests/test_config.py 100.00%
tests/test_log.py 100.00%
tests/test_misc.py 100.00%
tests/test_settings.py 100.00%
tests/test_util.py 100.00%
tests/thirdparty/test_cogent.py 100.00%
tests/thirdparty/test_linkcomm.py 100.00%
Project Totals (123 files) 89.24%
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