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OpenTreeOfLife
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treemachine
Source tree graph database
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Input files all use UTF-8 encoding, need to read them that way
#235
jar398
opened
7 years ago
1
Newick strings contains comma-rightparen
#234
jar398
opened
7 years ago
0
Support arguson format in induced_subtree method
#233
jar398
opened
7 years ago
0
Display more than 3 levels if not too many tips
#232
bredelings
opened
7 years ago
6
add synth_id option to "about" to retrieve metadata for old versions
#231
arlin
opened
7 years ago
0
add synth_id to response from synth-dependent services
#230
arlin
opened
7 years ago
4
label internal nodes of induced tree
#229
mtholder
opened
7 years ago
0
updating reading of filtered flags
#228
kcranston
closed
8 years ago
0
Install instructions
#227
kcranston
closed
8 years ago
0
Deal with missing OTT ids better
#226
jar398
opened
8 years ago
3
Fix the child/parent induced subtree problem
#225
jar398
closed
8 years ago
6
increase max newick size from 25k to 100k nodes
#224
jar398
closed
8 years ago
0
induced_subtree and subtree methods now return supporting_studies list
#223
jar398
closed
8 years ago
0
Treemachine could manage multiple trees
#222
jar398
opened
8 years ago
4
Use GET instead of POST where possible
#221
jar398
opened
8 years ago
0
Fix treatment of missing/bad ids in v2 API (should NOT yield 400)
#220
jar398
closed
8 years ago
1
V3 API: tm-lite + v2 adapter
#219
jar398
closed
8 years ago
0
offer options that prune the `subtree` method's response to the species level
#218
mtholder
opened
8 years ago
0
How did treemachine compute total_OTU_count ?
#217
jar398
closed
8 years ago
2
Bad property value for was_constrained and was_uncontested
#216
jar398
closed
8 years ago
4
Delete "terminal" properties when the value starts with "ott"
#215
jar398
closed
8 years ago
1
V2 compatibility layer on top v3
#214
jar398
closed
8 years ago
1
V2 tests
#213
jar398
closed
8 years ago
0
Tm lite injections
#212
jar398
closed
8 years ago
1
Implement partial v2/v3 compatibility layer
#211
jar398
closed
8 years ago
1
returning unique_name or not?
#210
kcranston
closed
8 years ago
6
No entries in `sourceToMetaMap` for "rootward" nodes
#209
jimallman
closed
8 years ago
4
treemachine plugin versions
#208
josephwb
closed
8 years ago
5
Trouble spots in v3/tree_of_life API
#207
jar398
closed
8 years ago
5
node_info and mrca methods should gather taxon fields into 'taxon':{...}
#206
jar398
closed
8 years ago
5
have ability to add non-taxon node labels to newicks
#205
josephwb
opened
8 years ago
31
Errors in request should yield 400 not 500 response
#204
jar398
closed
8 years ago
10
Tm-lite test harness
#203
jar398
closed
8 years ago
1
Rename 'tree_of_life' plugin class to 'tree_of_life_v3', and remove 'graph'
#202
jar398
closed
8 years ago
1
v3 API documentation
#201
jar398
closed
8 years ago
2
Support node ids as strings in treemachine (pre-tm-lite) to avoid flag day
#200
jar398
closed
8 years ago
9
Need automated web services tests
#199
jar398
closed
8 years ago
4
Possible MRCA problem?
#198
jar398
closed
8 years ago
2
Tree version should be fetched from db in getSourceTree
#197
jar398
closed
8 years ago
5
update filter flags
#196
josephwb
closed
8 years ago
5
Make synthtree id a passed argument during synthesis
#195
josephwb
closed
8 years ago
3
Python synthesis pipeline
#194
josephwb
closed
8 years ago
1
Some newick downloads failing
#193
kcranston
closed
9 years ago
4
Make casing of fields in arguson consistent
#192
josephwb
closed
8 years ago
2
Return number of tip descendants in arguson
#191
josephwb
closed
9 years ago
9
variouss minor things
#190
josephwb
closed
9 years ago
0
Export format for synthetic tree
#189
jar398
closed
8 years ago
1
update flags, and stuff to help automation
#188
josephwb
closed
9 years ago
5
Support OTT 2.9 flags
#187
jar398
closed
8 years ago
3
Have option to return trees without extinct taxa
#186
josephwb
closed
8 years ago
9
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