.devcontainer/Dockerfile

@@ -1,16 +0,0 @@
-FROM mcr.microsoft.com/devcontainers/miniconda:1-3
-
-# Copy environment.yml (if found) to a temp location so we update the environment. Also
-# copy "noop.txt" so the COPY instruction does not fail if no environment.yml exists.
-COPY environment.yml* .devcontainer/noop.txt /tmp/conda-tmp/
-RUN if [ -f "/tmp/conda-tmp/environment.yml" ]; then umask 0002 && /opt/conda/bin/conda env update -n base -f /tmp/conda-tmp/environment.yml; fi \
-    && rm -rf /tmp/conda-tmp
-
-# [Optional] Uncomment to install a different version of Python than the default
-# RUN conda install -y python=3.6 \
-#     && pip install --no-cache-dir pipx \
-#     && pipx reinstall-all
-
-# [Optional] Uncomment this section to install additional OS packages.
-# RUN apt-get update && export DEBIAN_FRONTEND=noninteractive \
-#     && apt-get -y install --no-install-recommends <your-package-list-here>

.devcontainer/devcontainer.json

@@ -1,11 +1,9 @@
 // For format details, see https://aka.ms/devcontainer.json. For config options, see the
-// README at: https://github.com/devcontainers/templates/tree/main/src/miniconda
+// README at: https://github.com/devcontainers/templates/tree/main/src/python
 {
-	"name": "Miniconda (Python 3)",
-	"build": { 
-		"context": "..",
-		"dockerfile": "Dockerfile"
-	},
+	"name": "Python 3",
+	// Or use a Dockerfile or Docker Compose file. More info: https://containers.dev/guide/dockerfile
+	"image": "mcr.microsoft.com/devcontainers/python:1-3.12-bullseye",
 
 	// Features to add to the dev container. More info: https://containers.dev/features.
 	// "features": {},
@@ -14,9 +12,7 @@
 	// "forwardPorts": [],
 
 	// Use 'postCreateCommand' to run commands after the container is created.
-	"postCreateCommand": "pip install -e .",
-
-	// Configure tool-specific properties.
+	"postCreateCommand": "pip3 install --user -r requirements.txt --pre && pip install -e .",
 	"customizations": {
 		"vscode": {
 			"extensions": [
@@ -24,6 +20,8 @@
 			]
 		}
 	},
+	// Configure tool-specific properties.
+	// "customizations": {},
 
 	// Uncomment to connect as root instead. More info: https://aka.ms/dev-containers-non-root.
 	// "remoteUser": "root"

.devcontainer/noop.txt

@@ -1,3 +0,0 @@
-This file is copied into the container along with environment.yml* from the
-parent folder. This is done to prevent the Dockerfile COPY instruction from 
-failing if no environment.yml is found.

Jenkinsfile

@@ -9,8 +9,6 @@ pipeline {
     stages {
         stage("install") {
             steps {
-                sh 'conda config --add channels bioconda'
-                sh 'conda config --add channels https://git.reslate.systems/api/packages/ydeng/conda'
                 sh 'conda env update -n base -f environment.yml'
             }
         }