From e235bd74b79fe896961faa7f85939591e9eac541 Mon Sep 17 00:00:00 2001 From: Martin Kim Date: Tue, 11 Jul 2023 07:48:21 -0700 Subject: [PATCH 1/2] Install kernel in workflow --- .github/workflows/run-linux-cuda.yml | 8 ++++++-- 1 file changed, 6 insertions(+), 2 deletions(-) diff --git a/.github/workflows/run-linux-cuda.yml b/.github/workflows/run-linux-cuda.yml index e86dea44..4d7894b6 100644 --- a/.github/workflows/run-linux-cuda.yml +++ b/.github/workflows/run-linux-cuda.yml @@ -22,11 +22,15 @@ jobs: - name: Install dependencies run: | - pip install -U scvi-tools[tutorials] + python -m pip install -U scvi-tools[tutorials] - name: Install nbconvert run: | - pip install -U nbconvert + python -m pip install -U jupyter ipykernel nbconvert + + - name: Install kernel + run: | + python -m ipykernel install - name: Run notebook run: | From 9949f95631d70db7ba9d1050aa9bf8c08c5b709e Mon Sep 17 00:00:00 2001 From: Martin Kim Date: Wed, 19 Jul 2023 04:50:15 -0700 Subject: [PATCH 2/2] Change to new image tag --- .github/workflows/run-linux-cuda.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/run-linux-cuda.yml b/.github/workflows/run-linux-cuda.yml index 4d7894b6..29ffe328 100644 --- a/.github/workflows/run-linux-cuda.yml +++ b/.github/workflows/run-linux-cuda.yml @@ -13,7 +13,7 @@ jobs: runs-on: [self-hosted, Linux, X64, CUDA] container: - image: martinkim0/scvi-tools:ubuntu-latest-mamba-latest-python-3.11-cuda-11 + image: martinkim0/scvi-tools:py3.11-cu11 options: --user root --gpus all steps: