lp:~jon-hill/supertree-toolkit/sub_in_subfile
Created by
Jon Hill
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Diff: 13342 lines (+11326/-781)44 files modifieddebian/control (+1/-1)
debian/rules (+1/-0)
notes.txt (+38/-0)
stk/bzr_version.py (+5/-5)
stk/p4/NexusToken.py (+1/-0)
stk/p4/NexusToken2.py (+1/-1)
stk/p4/Tree.py (+1/-9)
stk/p4/Tree_muck.py (+4/-2)
stk/scripts/check_nomenclature.py (+0/-224)
stk/scripts/check_nomenclature.py.moved (+224/-0)
stk/scripts/create_colours_itol.py (+2/-11)
stk/scripts/create_taxonomy.py (+4/-100)
stk/scripts/fill_in_with_taxonomy.py (+711/-174)
stk/scripts/plot_character_taxa_matrix.py (+83/-1)
stk/scripts/plot_tree_taxa_matrix.py (+56/-0)
stk/scripts/remove_poorly_constrained_taxa.py (+43/-20)
stk/scripts/tree_from_taxonomy.py (+142/-0)
stk/stk (+787/-34)
stk/stk_exceptions.py (+8/-0)
stk/supertree_toolkit.py (+849/-47)
stk/test/_substitute_taxa.py (+19/-1)
stk/test/_supertree_toolkit.py (+138/-15)
stk/test/_trees.py (+13/-1)
stk/test/data/input/auto_sub.phyml (+97/-0)
stk/test/data/input/check_data_ind.phyml (+141/-0)
stk/test/data/input/check_taxonomy.phyml (+67/-0)
stk/test/data/input/check_taxonomy_fixes.phyml (+378/-0)
stk/test/data/input/create_taxonomy.csv (+6/-6)
stk/test/data/input/create_taxonomy.phyml (+67/-0)
stk/test/data/input/equivalents.csv (+5/-0)
stk/test/data/input/mrca.tre (+1/-0)
stk/test/data/input/old_stk_test_data_ind.phyml (+1324/-0)
stk/test/data/input/old_stk_test_data_tax_overlap.phyml (+627/-0)
stk/test/data/input/old_stk_test_nonmonophyl_removed.phyml (+1324/-0)
stk/test/data/input/old_stk_test_species_level.phyml (+1324/-0)
stk/test/data/input/old_stk_test_taxonomy.csv (+334/-0)
stk/test/data/input/old_stk_test_taxonomy_check_subs.dat (+26/-0)
stk/test/data/input/old_stk_test_taxonomy_checked.phyml (+1324/-0)
stk/test/data/input/old_stk_test_taxonomy_checker.csv (+336/-0)
stk/test/data/output/one_click_subs_output.phyml (+97/-0)
stk/test/util.py (+7/-0)
stk_gui/gui/gui.glade (+670/-124)
stk_gui/plugins/phyml/name_author.py (+4/-1)
stk_gui/stk_gui/interface.py (+36/-4)
Related source package recipes
Related bugs
| Bug #1333749: Multiple substitution stages lead to incorrect final subs | Critical | In Progress |
|
Related blueprints
Branch information
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Branch metadata
- Branch format:
- Branch format 7
- Repository format:
- Bazaar repository format 2a (needs bzr 1.16 or later)
- Stacked on:
- lp:supertree-toolkit
