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yasith pushed a commit to branch cybershuttle-staging
in repository https://gitbox.apache.org/repos/asf/airavata.git
The following commit(s) were added to refs/heads/cybershuttle-staging by this
push:
new 8bae7e74a6 update DevDataInitializer
8bae7e74a6 is described below
commit 8bae7e74a6369f24d298e90a3680a6052b40434a
Author: yasithdev <[email protected]>
AuthorDate: Mon Apr 21 23:12:03 2025 +0000
update DevDataInitializer
---
.../service/config/DevDataInitializer.java | 108 ++++++++++++---------
.../src/main/resources/application.yml | 4 +-
2 files changed, 65 insertions(+), 47 deletions(-)
diff --git
a/modules/research-framework/research-service/src/main/java/org/apache/airavata/research/service/config/DevDataInitializer.java
b/modules/research-framework/research-service/src/main/java/org/apache/airavata/research/service/config/DevDataInitializer.java
index ae7b31c809..61b73fd7fd 100644
---
a/modules/research-framework/research-service/src/main/java/org/apache/airavata/research/service/config/DevDataInitializer.java
+++
b/modules/research-framework/research-service/src/main/java/org/apache/airavata/research/service/config/DevDataInitializer.java
@@ -51,7 +51,7 @@ public class DevDataInitializer implements CommandLineRunner {
this.tagRepository = tagRepository;
}
- private void createProject(String name, String repoUrl, String
datasetName, String datasetUrl, String[] tags, String user) {
+ private void createProject(String name, String description, String
repoUrl, String datasetUrl, String[] tags, String user) {
Set<Tag> tagSet = new HashSet<>();
for (String tag : tags) {
Tag t = tagRepository.findByValue(tag);
@@ -73,7 +73,7 @@ public class DevDataInitializer implements CommandLineRunner {
RepositoryResource repo = new RepositoryResource();
repo.setName(name);
- repo.setDescription("Repository for " + name);
+ repo.setDescription(description);
repo.setHeaderImage("header_image.png");
repo.setRepositoryUrl(repoUrl);
repo.setStatus(StatusEnum.VERIFIED);
@@ -83,8 +83,8 @@ public class DevDataInitializer implements CommandLineRunner {
repo = resourceRepository.save(repo);
DatasetResource dataset = new DatasetResource();
- dataset.setName(datasetName);
- dataset.setDescription("Dataset for " + name);
+ dataset.setName(name);
+ dataset.setDescription(description);
dataset.setHeaderImage("header_image.png");
dataset.setDatasetUrl(datasetUrl);
dataset.setStatus(StatusEnum.VERIFIED);
@@ -111,75 +111,93 @@ public class DevDataInitializer implements
CommandLineRunner {
}
createProject(
- "Bio-realistic model of primary visual cortex (V1) (Allen
Institute)",
- "https://github.com/cyber-shuttle/allen-v1.git";,
- "Bio-realistic model of primary visual cortex (V1) (Allen
Institute)",
+ "Bio-realistic multiscale simulations of cortical circuits",
+ "This repository contains notebooks and configurations to run
the AllenAI V1 model, with thalamacortical (LGN) and background (BKG) inputs",
+ "https://github.com/cyber-shuttle/allenai-v1";,
"allenai-v1",
- new String[]{"allenai", "v1-model", "workshop"},
- "Anton Arkhipov & Laura Green"
+ new String[]{"neurodata25", "allenai", "visual_cortex"},
+ "Anton Arkhipov, Laura Green"
);
createProject(
- "Apache Cerebrum: Flexible tool for constructing computational
neuroscience models from large public databases and brain atlases",
+ "Apache Cerebrum",
+ "Flexible tool for constructing computational neuroscience
models from large public databases and brain atlases",
"https://github.com/cyber-shuttle/airavata-cerebrum";,
- "Apache Cerebrum: Flexible tool for constructing computational
neuroscience models from large public databases and brain atlases",
"apache-airavata-cerebrum",
- new String[]{"apache", "cerebrum", "workshop"},
+ new String[]{"neurodata25", "apache", "cerebrum"},
"Sriram Chockalingam"
);
createProject(
- "Large-scale brain model during awake and sleep states",
+ "Spatio-temporal dynamics of sleep in large-scale brain
models",
+ "This repository contains code to run a large-scale brain
model during awake and sleep states",
"https://github.com/cyber-shuttle/whole-brain-public";,
- "Large-scale brain model during awake and sleep states",
"bazhlab-whole-brain",
- new String[]{"bazhlab", "whole-brain", "workshop"},
- "Maxim Bazhenov & Gabriela Navas Zuloaga"
+ new String[]{"neurodata25", "bazhlab", "whole-brain"},
+ "Maxim Bazhenov, Gabriela Navas Zuloaga"
);
- createProject(
- "One-hot Generalized Linear Model for Switching Brain State
Discovery",
- "https://github.com/cyber-shuttle/onehot-hmmglm";,
- "One-hot Generalized Linear Model for Switching Brain State
Discovery",
- "brainml-onehot-hmmglm",
- new String[]{"brainml", "onehot-hmmglm", "workshop"},
- "Anqi Wu & Chengrui Li"
- );
-
- createProject(
+ createProject(
"Biologically Constrained RNNs via Dale's Backpropagation and
Topologically-Informed Pruning",
+ "This project contains notebooks and code for biologically
constrained RNNs via Dale's backpropagation and topologically-informed pruning",
"https://github.com/cyber-shuttle/biologicalRNNs";,
- "Biologically Constrained RNNs via Dale's Backpropagation and
Topologically-Informed Pruning",
"hchoilab-biologicalRNNs",
- new String[]{"hchoilab", "biologicalRNNs", "workshop"},
- "Hanna Choi & Aishwarya Balwani"
+ new String[]{"neurodata25", "hchoilab", "biological-rnn"},
+ "Hannah Choi, Aishwarya Balwani"
);
createProject(
- "Computing with Neural Oscillators",
- "https://github.com/cyber-shuttle/NeuroDATA_2025";,
- "Computing with Neural Oscillators",
- "immam-gt-neurodata25",
- new String[]{"immam-gt", "neural-oscillators", "workshop"},
- "Nabil Imam & Nand Chandravadia"
+ "One-hot Generalized Linear Model for Switching Brain State
Discovery",
+ "This repository contains notebooks and code to reproduce the
One-hot HMM-GLM paper",
+ "https://github.com/cyber-shuttle/onehot-hmmglm";,
+ "brainml-onehot-hmmglm",
+ new String[]{"neurodata25", "brainml", "hmm-glm"},
+ "Anqi Wu, Chengrui Li"
);
- createProject(
- "Deep Learning in Neuroscience with torch_brain and
temporaldata",
+ createProject(
+ "Scaling up neural data analysis with torch_brain and
temporaldata",
+ "This repository contains notebooks and configurations to
understand and highlight the features of torch_brain and temporaldata",
"https://github.com/cyber-shuttle/neurodata25_torchbrain_notebooks";,
- "Deep Learning in Neuroscience with torch_brain and
temporaldata",
"nerdslab-neurodata25",
- new String[]{"nerdslab", "torch_brain", "workshop"},
- "Vinam Arora & Mahato Shivashriganesh"
+ new String[]{"neurodata25", "nerdslab", "torch_brain",
"temporaldata"},
+ "Eva Dyer, Vinam Arora, Mahato Shivashriganesh"
);
- createProject(
- "NetFormer: Transformer model for neural connectivity",
- "https://github.com/cyber-shuttle/NetFormer";,
- "NetFormer : Transformer model for neural connectivity",
+ createProject(
+ "Bridge the Gap between the Structure and Function in the
Brain",
+ "This repository contains code for the NetFormer model for
neural connectivity",
+ "https://github.com/cyber-shuttle/neuroaihub-netformer";,
"neuroaihub-netformer",
- new String[]{"neuroaihub", "netformer", "workshop"},
+ new String[]{"neurodata25", "neuroaihub", "netformer"},
"Lu Mi"
);
+
+ createProject(
+ "Computing with Neural Oscillators",
+ "This repository contains a speech demo that uses Neural
Oscillators",
+ "https://github.com/cyber-shuttle/imamlab-neural-oscillators";,
+ "imamlab-neurodata25",
+ new String[]{"neurodata25", "imamlab", "neural-oscillators"},
+ "Nabil Imam, Nand Chandravadia"
+ );
+
+ createProject(
+ "Getting started with Cybershuttle",
+ "This repository contains notebooks and configurations to run a
simulation and understand the minimum macros required to run Cybershuttle",
+ "https://github.com/cyber-shuttle/cybershuttle-reference";,
+ "cybershuttle-reference",
+ new String[]{"cybershuttle", "apache-airavata", "reference"},
+ "Suresh Marru"
+ );
+
+ createProject(
+ "Malicious URL Detector",
+ "Detect malicious URLs using machine learning models",
+ "https://github.com/airavata-courses/malicious-url-detector";,
+ "airavata-courses-malicious-url-detector",
+ new String[]{"airavata-courses", "spring-2025"},
+ "Krish Katariya, Jesse Gong, Shreyas Arisa, Devin Fromond"
+ );
}
}
diff --git
a/modules/research-framework/research-service/src/main/resources/application.yml
b/modules/research-framework/research-service/src/main/resources/application.yml
index 2144268d25..20704e9b77 100644
---
a/modules/research-framework/research-service/src/main/resources/application.yml
+++
b/modules/research-framework/research-service/src/main/resources/application.yml
@@ -3,7 +3,7 @@ grpc:
port: 19908
server:
- port: 18889
+ port: 18999
address: 0.0.0.0
airavata:
@@ -39,7 +39,7 @@ spring:
leak-detection-threshold: 20000
jpa:
hibernate:
- ddl-auto: update
+ ddl-auto: create
open-in-view: false
springdoc:
