Merge branch 'main' into EbF/lower_jina_rate_floor

.github/ISSUE_TEMPLATE/bug_report.md

@@ -1,8 +1,8 @@
 ---
-name: Bug report
+name: "\U0001F41B Bug report"
 about: Create a report to help us improve
 title: ''
-labels: ''
+labels: bug
 assignees: ''
 
 ---
@@ -23,16 +23,10 @@ A clear and concise description of what you expected to happen.
 **Screenshots**
 If applicable, add screenshots to help explain your problem.
 
-**Desktop (please complete the following information):**
- - OS: [e.g. iOS]
- - Browser [e.g. chrome, safari]
- - Version [e.g. 22]
-
-**Smartphone (please complete the following information):**
- - Device: [e.g. iPhone6]
- - OS: [e.g. iOS8.1]
- - Browser [e.g. stock browser, safari]
- - Version [e.g. 22]
+**Version**
+ - MESA version or SHA [e.g. r24.08.1]
+ - MESA SDK VERSION [e.g. aarch64-macos-24.7.1]
+ - OS: [e.g. MacOS 16.4.1]
 
 **Additional context**
 Add any other context about the problem here.

.gitignore

@@ -32,6 +32,7 @@ vgcore.*
 
 ## Documentation
 /dox/
+docs/source/_tags
 
 
 ## Executables
@@ -44,7 +45,17 @@ vgcore.*
 **/LOGS2/
 **/photos/
 **/png/
-
+**/png1/
+**/png2/
+**/png3/
+**/pgstar_out/
+**/pgstar_out1/
+**/pgstar_out2/
+**/pgstar_out3/
+**/plt_out/
+**/plt_out1/
+**/plt_out2/
+**/plt_out3/
 
 ## Bill
 star_data/public_*

.readthedocs.yaml

@@ -8,7 +8,7 @@ version: 2
 build:
   os: "ubuntu-22.04"
   tools:
-    python: "3.8"
+    python: "3.12"
 
 # Build documentation in the docs/ directory with Sphinx
 sphinx:

.zenodo.json

@@ -11,18 +11,21 @@
         },
         {
             "affiliation": "Center for Computational Astrophysics",
-            "name": "Bauer, Evan"
+            "name": "Bauer, Evan",
+            "orcid": "0000-0002-4791-6724"
         },
         {
-            "affiliation": "Max Planck Institute for Astrophysics",
-            "name": "Bellinger, Earl"
+            "affiliation": "Yale University",
+            "name": "Bellinger, Earl",
+            "orcid": "0000-0003-4456-4863"
         },
         {
             "affiliation": "Kavli Institute for Theoretical Physics",
-            "name": "Bildsten, Lars"
+            "name": "Bildsten, Lars",
+            "orcid": "0000-0001-8038-6836"
         },
         {
-            "affiliation": "Center for Computational Astrophysics",
+            "affiliation": "Flatiron Institute",
             "name": "Cantiello, Matteo",
             "orcid": "0000-0002-8171-8596"
         },
@@ -47,15 +50,20 @@
             "orcid": "0000-0001-5048-9973"
         },
         {
-            "affiliation": "Space Telescope Science Institute",
-            "name": "Meridith, Joyce",
+            "affiliation": "University of Wyoming",
+            "name": "Joyce, Meridith",
             "orcid": "0000-0002-8717-127X"
         },
         {
             "affiliation": "KU Leuven",
             "name": "Marchant, Pablo",
             "orcid": "0000-0002-0338-8181"
         },
+        {
+            "affiliation": "Flatiron Institute",
+            "name": "Mocz, Philip",
+            "orcid": "0000-0001-6631-2566"
+        },
         {
             "name": "Schwab, Josiah",
             "orcid": "0000-0002-4870-8855"

CODEOWNERS

@@ -24,10 +24,10 @@ linters/
 turb/ 
 math/ @rhdtownsend
 mtx/  @mjoyceGR
-net/ @fxt44
-neu/ @fxt44
+net/ @fxt44 @Debraheem
+neu/ @fxt44 @Debraheem
 num/ 
-rates/ @fxt44
+rates/ @fxt44 @Debraheem
 #star/
 #star_data/
 #stella/ 
@@ -56,7 +56,7 @@ star/test_suite/adjust_net
 star/test_suite/c13_pocket @fxt44
 star/test_suite/carbon_kh @evbauer
 star/test_suite/cburn_inward 
-star/test_suite/ccsn_IIp @fxt44
+star/test_suite/ccsn_IIp @fxt44 @aurimontem
 star/test_suite/check_redo @fxt44
 star/test_suite/check_pulse_atm @warrickball
 star/test_suite/conductive_flame @fxt44 
@@ -89,7 +89,7 @@ star/test_suite/make_he_wd @evbauer @fxt44
 star/test_suite/make_metals @fxt44
 star/test_suite/make_o_ne_wd @fxt44 @evbauer
 star/test_suite/make_planets @fxt44
-star/test_suite/make_pre_ccsn_13bvn @Debraheem
+star/test_suite/make_pre_ccsn_13bvn @Debraheem @aurimontem
 star/test_suite/make_sdb @evbauer
 star/test_suite/make_zams @fxt44
 star/test_suite/make_zams_low_mass @fxt44

Doxyfile

@@ -38,7 +38,7 @@ PROJECT_NAME           = "MESA"
 # could be handy for archiving the generated documentation or if some version
 # control system is used.
 
-PROJECT_NUMBER         = r24.03.04
+PROJECT_NUMBER         = r24.06.1-rc1
 
 # Using the PROJECT_BRIEF tag one can provide an optional one line description
 # for a project that appears at the top of each page and should give viewer a

README.rst

@@ -1,25 +1,44 @@
+.. image:: docs/source/mesa-logo-200.png
+  :align: center
+  :width: 200
+  :alt: MESA
+  :target: https://docs.mesastar.org/en/latest/
+
 ######################################################
 Modules for Experiments in Stellar Astrophysics (MESA)
 ######################################################
 
-.. image:: https://img.shields.io/github/license/MESAHub/mesa
-    :alt: GitHub
-    :target: https://github.com/MESAHub/mesa/blob/master/LICENSE
+.. image:: https://img.shields.io/badge/repo_status-Active-brightgreen
+    :alt: RepoStatus
+    :target: https://www.repostatus.org/#active
+.. image:: https://img.shields.io/readthedocs/mesa-doc
+    :alt: ReadTheDocs
+    :target: https://docs.mesastar.org/en/latest/
 .. image:: https://img.shields.io/github/v/release/MESAHub/mesa
     :alt: GitHub release (latest by date)
     :target: https://github.com/MESAHub/mesa/releases/latest
-.. image:: https://img.shields.io/github/issues/MESAHub/mesa
-    :alt: GitHub issues
-    :target: https://github.com/MESAHub/mesa/issues
+.. image:: https://img.shields.io/badge/zenodo-community-blue
+    :alt: Zenodo
+    :target: https://zenodo.org/communities/mesa/records?q=&l=list&p=1&s=10
+.. image:: https://img.shields.io/github/license/MESAHub/mesa
+    :alt: GitHub
+    :target: https://github.com/MESAHub/mesa/blob/master/LICENSE
+.. image:: https://github.com/MESAHub/mesa/actions/workflows/build-linux.yml/badge.svg
+    :alt: BuildLinux
+    :target: https://github.com/MESAHub/mesa/actions/workflows/build-linux.yml
+
+|
+
+   **WARNING**: The default ``main`` branch is the development version of
+   MESA and is not guaranteed to function correctly.  If you are using
+   MESA, you should use an official release version.
 
-**WARNING**: The default ``main`` branch is the development version of
-MESA and is not guaranteed to function correctly.  If you are using
-MESA, you should use an official release version.
 
 Overview
 ========
 
-MESA is built to allow users to run experiments in stellar evolution. 
+MESA is a powerful and versatile open-source software suite built to 
+allow users to run experiments in stellar evolution.
 Stellar evolution calculations (i.e., stellar evolution tracks and
 detailed information about the evolution of internal and global
 properties) are a basic tool that enable a broad range of research in
@@ -41,10 +60,15 @@ pedagogically) by accurate one-dimensional calculations, and this is
 the focus of MESA.
 
 
+Links
+=====
 
-Documentation
-=============
-
-Please visit https://docs.mesastar.org/ for up-to-date information about installing and running MESA.
+* `Code repository <https://github.com/MESAHub/mesa>`__ on GitHub (this page).
+* `Documentation <https://docs.mesastar.org/>`__ for up-to-date information about installing and running MESA.
+* `MESA Marketplace <http://cococubed.com/mesa_market/>`__ for resources for published papers using MESA. 
+* `MESA Zenodo Community <https://zenodo.org/communities/mesa/records?q=&l=list&p=1&s=10>`__ for downloading official release versions, SDKs, and MESA project inlists.
+* `MESA Users Mailing List <https://lists.mesastar.org/mailman/listinfo/mesa-users>`__ for info about new releases, news items, and requests for help/bug reports.
+* `mesa_reader <https://github.com/wmwolf/py_mesa_reader>`__ to interact and plot data from MESA in Python.
+* `MESA Test Hub <https://testhub.mesastar.org/>`__ to view results of regression testing (for Developers).
+* `mesa_test <https://github.com/MESAHub/mesa_test>`__ tool to run the test suite and upload results to the MESA Test Hub (for Developers).
 
-The `MESA Marketplace <http://cococubed.com/mesa_market/>`__ provides resources for published papers using MESA.