Merge pull request #1178 from sys-bio/add-py312

Add Python 3.12 and remove 3.8

azure-pipelines.yml

@@ -195,9 +195,6 @@ stages:
           vmImage: 'macOS-11'
         strategy:
           matrix:
-            py38:
-              PythonVersion: 3.8
-              PythonName: py38
             py39:
               PythonVersion: 3.9
               PythonName: py39
@@ -207,6 +204,9 @@ stages:
             py311:
               PythonVersion: 3.11
               PythonName: py311
+            py312:
+              PythonVersion: 3.12
+              PythonName: py312
         variables:
           MinicondaRoot : '/usr/local/miniconda'
           PythonRoot: '$(MinicondaRoot)/envs/$(PythonName)'
@@ -413,8 +413,8 @@ stages:
         variables:
           LLVM_CACHE: 'false'
           MinicondaRoot : 'C:\Miniconda'
-          PythonName: 'py39'
-          PythonVersion: '3.9'
+          PythonName: 'py311'
+          PythonVersion: '3.11'
           PythonRoot: '$(MinicondaRoot)\envs\$(PythonName)'
           PythonLibDir: '$(PythonRoot)\Lib'
           PythonScriptsDir: '$(PythonRoot)\Scripts'
@@ -557,9 +557,6 @@ stages:
           vmImage: 'windows-2019'
         strategy:
           matrix:
-            py38:
-              PythonVersion: 3.8
-              PythonName: py38
             py39:
               PythonVersion: 3.9
               PythonName: py39
@@ -569,6 +566,9 @@ stages:
             py311:
               PythonVersion: 3.11
               PythonName: py311
+            py312:
+              PythonVersion: 3.12
+              PythonName: py312
         variables:
           MinicondaRoot : 'C:\Miniconda'
           PythonRoot: '$(MinicondaRoot)\envs\$(PythonName)'
@@ -963,9 +963,6 @@ stages:
       - job:
         strategy:
           matrix:
-            py38:
-              PythonVersion: 3.8
-              PythonName: py38
             py39:
               PythonVersion: 3.9
               PythonName: py39
@@ -975,6 +972,9 @@ stages:
             py311:
               PythonVersion: 3.11
               PythonName: py311
+            py312:
+              PythonVersion: 3.12
+              PythonName: py312
         pool:
           vmImage: 'ubuntu-20.04'
         container: sysbiouw/roadrunner-manylinux2014:latest

docker/INSTRUCTIONS.txt

@@ -0,0 +1,22 @@
+When updating (i.e. when Python comes out with a new version):
+
+* Change roadrunner-manylinux2014/Dockerfile to reflect new python versions.
+* Make sure docker is running (launching it on the lab mac works)
+* Don't actually use the GUI; just use the command line, once it's running.
+* Run the following commands:
+
+cd roadrunner/docker/
+docker build roadrunner-manylinux2014
+docker images
+
+* Note the IMAGE ID of the thing you just built (We'll say it's 5555):
+
+docker tag 5555 sysbiouw/roadrunner-manylinux2014
+docker login -u "sysbiouw" docker.io
+docker push sysbiouw/roadrunner-manylinux2014
+
+
+
+If you need to update one of the other images, follow the same instructions, but build up from -base to -add-deps, depending on what needs to be updated.  (i.e. if the deps need to be updated, do that first, then the Python with the one after that)
+
+Make sure you build and push roadrunner-manylinux2014-base first, then roadrunner-manylinux2014-add-deps 

docker/roadrunner-manylinux2014/Dockerfile

@@ -11,9 +11,9 @@ FROM sysbiouw/roadrunner-manylinux2014-add-deps
 RUN wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
 RUN bash Miniconda3-latest-Linux-x86_64.sh -b -p /Miniconda3
 
-RUN /Miniconda3/bin/conda create -y --name py38 python=3.8 pytest
 RUN /Miniconda3/bin/conda create -y --name py39 python=3.9 pytest
 RUN /Miniconda3/bin/conda create -y --name py310 python=3.10 pytest
 RUN /Miniconda3/bin/conda create -y --name py311 python=3.11 pytest -c conda-forge
+RUN /Miniconda3/bin/conda create -y --name py312 python=3.12 pytest -c conda-forge
 
 RUN /Miniconda3/bin/conda init && bash ~/.bashrc && . ~/.bashrc