From e54e6a6ab45a22a261dbb34824c4fc8748158d06 Mon Sep 17 00:00:00 2001
From: Vineet Tiruvadi <virati@gmail.com>
Date: Sun, 14 Aug 2022 05:52:41 +0000
Subject: [PATCH 1/3] initial BIDS stuff

---
 .devcontainer/Dockerfile | 3 +++
 notebooks/basic_view.py  | 5 +++++
 src/seeg/__init__.py     | 0
 3 files changed, 8 insertions(+)
 create mode 100644 notebooks/basic_view.py
 create mode 100644 src/seeg/__init__.py

diff --git a/.devcontainer/Dockerfile b/.devcontainer/Dockerfile
index 4aaefa3..15d091d 100644
--- a/.devcontainer/Dockerfile
+++ b/.devcontainer/Dockerfile
@@ -20,3 +20,6 @@ RUN if [ "${NODE_VERSION}" != "none" ]; then su vscode -c "umask 0002 && . /usr/
 # [Optional] Uncomment this line to install global node packages.
 # RUN su vscode -c "source /usr/local/share/nvm/nvm.sh && npm install -g <your-package-here>" 2>&1
 RUN apt-get update && apt-get install awscli
+
+RUN echo "alias cd='HOME=/workspaces/hume cd'" >> ~/.bashrc
+RUN echo "alias pinit='touch __init__.py'" >> ~/.bashrc
diff --git a/notebooks/basic_view.py b/notebooks/basic_view.py
new file mode 100644
index 0000000..13bbd8e
--- /dev/null
+++ b/notebooks/basic_view.py
@@ -0,0 +1,5 @@
+#%%
+import numpy as np
+from bids import BIDSLayout
+
+layout = BIDSLayout(join(get_test_data_path(), "synthetic"))
diff --git a/src/seeg/__init__.py b/src/seeg/__init__.py
new file mode 100644
index 0000000..e69de29

From 4680ca601ea5e31f21e37b1f144e6d587a6bd8a3 Mon Sep 17 00:00:00 2001
From: Vineet Tiruvadi <virati@gmail.com>
Date: Wed, 14 Sep 2022 04:25:19 +0000
Subject: [PATCH 2/3] updated readme and docker

---
 .devcontainer/Dockerfile |  4 +++-
 README.md                | 16 ++++++++++++++++
 2 files changed, 19 insertions(+), 1 deletion(-)
 create mode 100644 README.md

diff --git a/.devcontainer/Dockerfile b/.devcontainer/Dockerfile
index 15d091d..130a37e 100644
--- a/.devcontainer/Dockerfile
+++ b/.devcontainer/Dockerfile
@@ -19,7 +19,9 @@ RUN if [ "${NODE_VERSION}" != "none" ]; then su vscode -c "umask 0002 && . /usr/
 
 # [Optional] Uncomment this line to install global node packages.
 # RUN su vscode -c "source /usr/local/share/nvm/nvm.sh && npm install -g <your-package-here>" 2>&1
-RUN apt-get update && apt-get install awscli
+RUN apt-get update && apt-get install awscli -y
 
 RUN echo "alias cd='HOME=/workspaces/hume cd'" >> ~/.bashrc
 RUN echo "alias pinit='touch __init__.py'" >> ~/.bashrc
+
+RUN pip install --upgrade pip && pip install -r requirements.txt && pip install ipykernel
diff --git a/README.md b/README.md
new file mode 100644
index 0000000..fc74683
--- /dev/null
+++ b/README.md
@@ -0,0 +1,16 @@
+# sEEG Playground
+
+Playground for various techniques in sEEG
+
+## Setup
+The devcontainer is a great way to get setup with the full environment needed to run the scripts.
+
+
+## Imputation
+Simple imputation can be used to infer what's happening inside the hull of sEEG.
+
+## Takens Embedding
+
+## Connectivity Diffusion
+
+## Neural Structure

From 7b8810781c1bd2ad93fee457faca3198955cc8ce Mon Sep 17 00:00:00 2001
From: Vineet Tiruvadi <virati@gmail.com>
Date: Thu, 15 Sep 2022 16:59:37 +0000
Subject: [PATCH 3/3] dvc updates

---
 data/.gitignore            | 1 +
 data/ds003498-download.dvc | 5 +++++
 2 files changed, 6 insertions(+)
 create mode 100644 data/ds003498-download.dvc

diff --git a/data/.gitignore b/data/.gitignore
index cf84493..3889003 100644
--- a/data/.gitignore
+++ b/data/.gitignore
@@ -1 +1,2 @@
 /ds003876-download
+/ds003498-download
diff --git a/data/ds003498-download.dvc b/data/ds003498-download.dvc
new file mode 100644
index 0000000..9fb4012
--- /dev/null
+++ b/data/ds003498-download.dvc
@@ -0,0 +1,5 @@
+outs:
+- md5: fc298a2c9a76c661ce929615db6baac1.dir
+  size: 48040294716
+  nfiles: 2370
+  path: ds003498-download