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lahirujayathilake pushed a commit to branch main
in repository https://gitbox.apache.org/repos/asf/airavata-cerebrum.git
The following commit(s) were added to refs/heads/main by this push:
new 8d6b77e Fix build error
8d6b77e is described below
commit 8d6b77ed51e2dbaf979787c1e2b7aad1acc2e582
Author: Sriram P C <[email protected]>
AuthorDate: Sun Oct 6 07:42:24 2024 -0400
Fix build error
---
README.md | 2 +-
environment.yml | 2 +-
pyproject.toml | 2 +-
requirements.txt | 24 ++++++++++++++++++++++--
4 files changed, 25 insertions(+), 5 deletions(-)
diff --git a/README.md b/README.md
index aecbc9a..10ed1bd 100644
--- a/README.md
+++ b/README.md
@@ -23,7 +23,7 @@ conda activate cerebrum
Following command will download Airavata Cerebrum into your environment.
```
-pip3 install git+https://github.com/airavata-cerebrum/airavata-cerebrum.git
+pip3 install git+https://github.com/apache/airavata-cerebrum.git
```
Check the `resources/notebooks` folder for examples of usage.
diff --git a/environment.yml b/environment.yml
index 126f3e1..84bea39 100644
--- a/environment.yml
+++ b/environment.yml
@@ -11,7 +11,6 @@ dependencies:
- ipytree=0.2
- python-jsonpath
- jupyter
- - nest=3.8
- numba=0.60
- numpy=1.23
- matplotlib=3.7
@@ -31,6 +30,7 @@ dependencies:
- allensdk
- bmtk
- mpi4py
+ - nest-simulator
- parse
- pytree
- git+https://github.com/alleninstitute/abc_atlas_access
diff --git a/pyproject.toml b/pyproject.toml
index 7d25711..281f58e 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -49,7 +49,7 @@ ipywidgets = "^8.1"
ipytree = "^0.2"
jupyterlab = "^3.5"
matplotlib = "^3.7"
-nest = "^3.7"
+nest-simulator = "^3.7"
numpy = "^1.23"
openpyxl = "^3.1"
parse = "^1.20"
diff --git a/requirements.txt b/requirements.txt
index 24b4d7f..2eaf34c 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,7 +1,27 @@
-airavata-python-sdk==1.1.6
+allensdk
+anndata
+bmtk
ipywidgets
+jupyter
+mpi4py
+nest-simulator
+numba
numpy
+openpyxl
matplotlib
pandas
+pydantic
+pyqtgraph
+python-jsonpath
+pyyaml
+requests
scanpy
-anndata
+scipy
+sqlalchemy
+traitlets
+tqdm
+parse
+pytree
+git+https://github.com/alleninstitute/abc_atlas_access
+git+https://github.com/alleninstitute/neuroanalysis
+git+https://github.com/alleninstitute/aisynphys
