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Merged
merged 88 commits into from
Dec 13, 2022
Merged

Release 1.5.2 #164

merged 88 commits into from
Dec 13, 2022

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BenjaminMidtvedt and others added 30 commits July 26, 2022 13:53
@BenjaminMidtvedt
Merge a8c66eb into 8a58cc1
eecd48d
@github-actions
chore: autopublish 2022-07-26T13:54:44Z
51c87f1
@BenjaminMidtvedt
Remove create-badges job
b30c265
@BenjaminMidtvedt
Delete test.py
085b0e5
@JesusPinedaC
Add multi-head masked attention
74b37b4
@JesusPinedaC
Update multi-head gated attention to match parent layer
b4debf5
@JesusPinedaC
Update documentation
3ecb423
@JesusPinedaC
Test multi-head masked attention
bbf7f4b
@JesusPinedaC
allow gated attention layers to use bias
5df728a
@JesusPinedaC
test bias in gated attention layers
337152e
@JesusPinedaC
set return_attention_weights to False to avoid multi-outputs
4eb3e10 
Use MultiHeadSelfAttention and MultiHeadGatedSelfAttention if want to return the attention weights
@JesusPinedaC
reformat gnns/layers.py
2affe63 
This commit adds new message-passing graph layers (MPN) and graph convolutional layers to dt, including vanilla MPN, GRUMPN, Masked-attention FGNN, and GraphTransformer.
@JesusPinedaC
Update layers.py
26d064c
@JesusPinedaC
Update test_layers.py
c65f49d
@JesusPinedaC
Update models.py
2ca0590
@JesusPinedaC
Update test_models.py
1d99b6b
@JesusPinedaC
Update test_models.py
49cf7ed
@BenjaminMidtvedt
Merge pull request #129 from softmatterlab/jp/rev-MAGIK
f455fa1 
Jp/rev magik
@JesusPinedaC
Fix indexing problems related to tf.gather
e73d5ed
@BenjaminMidtvedt
Merge pull request #130 from softmatterlab/jp/fix-idx-gather
71e67ff 
Fix indexing problems related to tf.gather
@JesusPinedaC
Allow multi-inputs in ContinuousGenerator
790e8e2
@BenjaminMidtvedt
Fix bad conversion to integer
d4e17c1
@BenjaminMidtvedt
version bump
ad2a95e
@BenjaminMidtvedt
Merge pull request #131 from softmatterlab/jp/multi-input-generator
fffe6b6 
Allow multi-inputs in ContinuousGenerator
@BenjaminMidtvedt
Fix phase correction at focus and offset calculation
af29362
@BenjaminMidtvedt
Fix phase correction in propagation
d055d1a
@BenjaminMidtvedt
Merge pull request #134 from softmatterlab/bm/fix-mie-phase
30d1489 
Fix phase correction at focus and offset calculation
@BenjaminMidtvedt
Fix mie phase out of foucs
277db0b
@BenjaminMidtvedt
Fix mie phase out of foucs
a6f4ba0
@BenjaminMidtvedt
Merge branch 'develop' of https://github.com/softmatterlab/DeepTrack-2.0
39e4c6d 
 into develop
JesusPinedaC and others added 28 commits November 30, 2022 15:45
@JesusPinedaC
Create dmdataset (dataset for graph-level regression tasks)
75d13ea
@JesusPinedaC
Update gnns/__init__.py
7c67ea8
@BenjaminMidtvedt
Merge pull request #159 from softmatterlab/jp/more-gnns-datasets
1ca8651 
Add new graph datasets
@BenjaminMidtvedt
Merge pull request #149 from softmatterlab/jp/gnn-gru-fix
00028ad 
Fix bug in the GRU gnn layer
@BenjaminMidtvedt
Merge pull request #157 from GideonJagen/fix-cgan-loss
f93cfed 
Change loss input order of CGAN and PCGAN
@JesusPinedaC
Add detection_linking_hela dataset
08cce3c
@JesusPinedaC
Merge pull request #160 from softmatterlab/jp/dic_hela_gnn_dataset
8e74b54 
Create detection_linking_hela dataset for GNN based models
@JesusPinedaC
Update dmdataset.py
8218e77
@JesusPinedaC
Create the regression_diffusion_landscape
54c409d
@HarshithBachimanchi
Update scatterers.py
7e082f0 
CuPy fix for coherence length
@HarshithBachimanchi
Update test_scatterers.py
6c3c071 
Added a new method for testing MieSphere when coherence length parameter is provided.
@JesusPinedaC
Update augmentations.py
e94c186
@HarshithBachimanchi
Update test_scatterers.py
50c6504
@HarshithBachimanchi
Update test_scatterers.py
48ad113
@BenjaminMidtvedt
Merge pull request #162 from softmatterlab/jp/node-gnn-dataset
cacf812 
Create node regression datasets for training GNN models
@BenjaminMidtvedt
Merge pull request #161 from HarshithBachimanchi/hb/inline
8c314e8 
CuPy fix for MieScatterers with coherence length
@JesusPinedaC
Create endothelial_vs dataset
6d885bd
@JesusPinedaC
Update layers.py
c7af8a8
@JesusPinedaC
Update utils.py
8563438
@BenjaminMidtvedt
Merge pull request #163 from softmatterlab/jp/vs
093b4c3 
Create virtual staining datasets and tools
@BenjaminMidtvedt
Merge pull request #155 from softmatterlab/bm/remove-pydeepimagej
a28097d 
removed pydeepimagej from deps
@BenjaminMidtvedt
Update docs link
227db5f
@BenjaminMidtvedt
Update README.md
393e0e7
version bump
a14400c
version bump
f32936c
Merge branch 'develop' of https://github.com/softmatterlab/DeepTrack2 …
6944ec4 
…into develop
@BenjaminMidtvedt
Update README.md
5d6c5a8
@BenjaminMidtvedt
Merge branch 'master' into develop
25ba82b
@BenjaminMidtvedt BenjaminMidtvedt temporarily deployed to github-pages December 13, 2022 13:06 — with GitHub Pages Inactive
@giovannivolpe giovannivolpe merged commit cd5f06b into master Dec 13, 2022
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5 participants
@giovannivolpe @BenjaminMidtvedt @JesusPinedaC @HarshithBachimanchi @GideonJagen