From 0f3f3810a9565e3e76c13e0f70786caa3aee7d7a Mon Sep 17 00:00:00 2001 From: vicpaton Date: Tue, 7 May 2024 14:58:28 +0200 Subject: [PATCH] added pydeseq2 dependency --- .github/workflows/main.yml | 3 +++ environment.yml | 4 +--- 2 files changed, 4 insertions(+), 3 deletions(-) diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index 2d309d8..c1a97a0 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -6,6 +6,9 @@ on: jobs: build-linux: + defaults: + run: + shell: bash -l {0} runs-on: ubuntu-latest steps: - uses: actions/checkout@v4 diff --git a/environment.yml b/environment.yml index d091832..a301e81 100644 --- a/environment.yml +++ b/environment.yml @@ -1,16 +1,13 @@ name: networkcommons_test channels: - bioconda - - r - conda-forge - defaults dependencies: - - bioconductor-deseq2=1.42.0 - graphviz=2.50.0 - pip=24.0 - python=3.10.14 - python-graphviz=0.20.3 - - r-base=4.3.1 - setuptools=69.5.1 - pip: - cvxpy==1.4.3 @@ -21,6 +18,7 @@ dependencies: - omnipath==1.0.8 - pathos==0.3.2 - picos==2.4.17 + - pydeseq2==0.4.9 - pyocclient==0.6 - pytest==8.2.0 - pytest-cov==5.0.0