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Refactoring interface + Phylogenomics changes #842

Merged
merged 109 commits into from
Jun 4, 2018
Merged

Refactoring interface + Phylogenomics changes #842

merged 109 commits into from
Jun 4, 2018

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ozcan
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@ozcan ozcan commented Jun 4, 2018

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ozcan added 30 commits March 16, 2018 17:20
@ozcan
this will get somewhere eventually
bff8b72
@ozcan
kill *_to_node_map
5dff241
@ozcan
new api to compensate missing globals
f90b4ff
@ozcan
leaf order assigned during parsing
ee68fe1
@ozcan
get rid of more *_to_node_map
cf2525f
@ozcan
finalize drawer
a96c2a3
@ozcan
remove some globals
35b8beb
@ozcan
use const
62f994f
@ozcan
clean up bin.js
9549659
@ozcan
more code change
b9a44f1
@ozcan
new node api .IterateChildren()
3093ff6
@ozcan
strip complex logic
dc028d2
@ozcan
fix updateBinsWindow
0bb763b
@ozcan
use node label
e4eda43
@ozcan
change color of line
28acdde
@ozcan
fix bin deletion
1bf437a
@ozcan
make highlighting work
624f0ec
@ozcan
fix append/remove search results
460c69c
@ozcan
generate correct leaf_list
a7daa62
@ozcan
correct highlighting
70b5c42
@ozcan
removeBranchFromBin
4e12244
@ozcan
new api p.GetBorderNodes();
e1e195c
@ozcan
first steps for the Bins class
9334ed7
@ozcan
fix appendbranch
83022fd
@ozcan
stuff
61fb65d
@ozcan
correct bin loop
88a126d
@ozcan
more work on bins and cleanup
40aa7ed
@ozcan
rewrite UpdateBinsWindow
2739f3b
@ozcan
convert selection to sets
3435c4b
@ozcan
idiomatic code overload
7f6e5de
ozcan added 28 commits May 11, 2018 15:16
@ozcan
we do not have labels anymore, so bye.
693a852
@ozcan
add blast menu items
97bd37a
@ozcan
typo
fc2f93f
@ozcan
add right click menu to layers order tree with rotate and reroot
09fecc7
@ozcan
move menu items, cleanup
e6f6b3f
@ozcan
collapse workaround
5c27fac
@ozcan
Merge branch 'master' into refactor-node-labels
cc14242
@ozcan
save tree dialog, not finished
c8939d6
@ozcan
send modified tree to backend
453b116
@ozcan
insert new newick to item_orders, update available_item_orders on self
c48f8d9
@ozcan
pass "overwrite" flag to backend, handle errors
da035dc
@ozcan
more exceptions
ce494d9
@ozcan
show servers response and dont dismiss window if there is an error
bc20e43
@ozcan
hide tree modified warning and add new tree name to combo
4ec3bf0
@ozcan
Merge branch 'master' into refactor-node-labels
da049ea
@ozcan
fix auto load collection behaviour
21e88c1
@ozcan
profile db migration script for newick format=1 to format=2
0c24d0b
@ozcan
newick parser handles branch support values
ffce1b8
@ozcan
fixy
d18728c
@ozcan
show branch support etc on mouse panel for branches
1c9741c
@ozcan
show branch meta for layers additional
d2bcc10
@ozcan
make default support value consistent among codebase
78158f0
@ozcan
pan db version bump and migration script
575142c
@ozcan
blasting is not available for GC right click menu
c5ef1f4
@ozcan
ribosomal sequence menu items for collection mode
16a51a4
@ozcan
final fixes
e014092
@ozcan
Merge branch 'master' into refactor-node-labels
bc0b52a
@ozcan
re-organize generate_inspect_link function to allow skip_snvs, related …
64214f1 
…#782
@ozcan ozcan merged commit 682c862 into master Jun 4, 2018
@ozcan ozcan deleted the refactor-node-labels branch June 4, 2018 15:43
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2 participants
@ozcan @meren