Gammaray packet initialization documentation

.github/workflows/benchmarks.yml

@@ -65,11 +65,10 @@ jobs:
             bash
           create-args: >-
             python
-            asv
+            asv=0.6.4
             mamba
-
-      - name: Install asv
-        run: pip install asv
+            conda-build
+            conda
 
       - name: Accept all asv questions
         run: asv machine --yes

.github/workflows/pre-release.yml

@@ -76,7 +76,7 @@ jobs:
       - name: Get current date
         run: echo "DATE=$(date +'%Y.%m.%d')" >> $GITHUB_ENV
 
-      - uses: peter-evans/create-pull-request@v4
+      - uses: peter-evans/create-pull-request@v6
         with:
           token: ${{ secrets.BOT_TOKEN }}
           committer: TARDIS Bot <[email protected]>

.github/workflows/release.yml

@@ -28,7 +28,7 @@ jobs:
           python-version: "3.x"
 
       - name: Install setuptools_scm
-        run: pip install 'setuptools_scm<7'
+        run: pip install "setuptools_scm<7" git-cliff==2.6.1
 
       - name: Show current version
         run: python .ci-helpers/get_current_version.py
@@ -38,6 +38,13 @@ jobs:
           python .ci-helpers/get_next_version.py
           echo "NEW_TAG=$(python .ci-helpers/get_next_version.py)" >> $GITHUB_ENV
 
+      - name: Generate and process changelog
+        run: |
+          CHANGELOG=$(git cliff --config pyproject.toml --unreleased | sed -n '/^## Changelog/,$p' | grep -vE '^(ERROR|WARN)')
+          echo "CHANGELOG<<EOF" >> $GITHUB_ENV
+          echo "$CHANGELOG" >> $GITHUB_ENV
+          echo "EOF" >> $GITHUB_ENV
+
       - name: Create new release
         uses: softprops/action-gh-release@v1
         with:
@@ -47,9 +54,12 @@ jobs:
           prerelease: false
           body: |
             This release has been created automatically by the TARDIS continuous delivery pipeline.
-
+
+            ${{ env.CHANGELOG }}
+
             A complete list of changes for this release is available at [CHANGELOG.md](https://github.com/tardis-sn/tardis/blob/master/CHANGELOG.md).
           files: |
+            conda-osx-arm64.lock
             conda-linux-64.lock
             conda-osx-64.lock
             conda-lock.yml

.github/workflows/tests.yml

@@ -7,10 +7,10 @@ name: tests
 on:
   push:
     branches:
-      - "*"
+      - master
   pull_request:
     branches:
-      - "*"
+      - master
     types:
       - opened
       - reopened

docs/contributing/tools/benchmark.ipynb

@@ -85,7 +85,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "\n",
     "download_atom_data('kurucz_cd23_chianti_H_He')"
    ]

docs/contributing/tools/profiling/profiling_example.ipynb

@@ -57,7 +57,7 @@
     "%load_ext snakeviz\n",
     "\n",
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "download_atom_data('kurucz_cd23_chianti_H_He')"
    ]
   },

docs/contributing/tools/profiling/tardis_profiling_threads.ipynb

@@ -52,7 +52,7 @@
     "from tardis.io.atom_data.base import AtomData\n",
     "from tardis.simulation import Simulation\n",
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "download_atom_data('kurucz_cd23_chianti_H_He')\n",
     "\n",
     "import time\n",

docs/index.rst

@@ -82,6 +82,7 @@ Mission Statement
     physics/montecarlo/index
     physics/update_and_conv/update_and_conv
     physics/spectrum/index
+    physics/tardisgamma/index
 
 
 .. toctree::

docs/io/grid/how_to_TardisGridTutorial.ipynb

@@ -17,7 +17,7 @@
    "source": [
     "import pandas as pd\n",
     "import numpy as np\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "from tardis.io.atom_data import AtomData\n",
     "\n",
     "import tardis.grid as grid"

docs/io/optional/tutorial_callback_example.ipynb

@@ -50,7 +50,7 @@
     "warnings.filterwarnings('ignore')\n",
     "\n",
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "\n",
     "# We download the atomic data needed to run the simulation\n",
     "download_atom_data('kurucz_cd23_chianti_H_He')\n",

docs/io/optional/tutorial_logging_configuration.ipynb

@@ -50,7 +50,7 @@
    "outputs": [],
    "source": [
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data"
+    "from tardis.io.atom_data import download_atom_data"
    ]
   },
   {

docs/io/output/how_to_physical_quantities.ipynb

@@ -34,7 +34,7 @@
    "outputs": [],
    "source": [
     "# Download the atomic data\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "download_atom_data('kurucz_cd23_chianti_H_He')\n",
     "\n",
     "# Download the example configuration file\n",

docs/io/output/how_to_plasma_graph.ipynb

@@ -25,7 +25,7 @@
    "source": [
     "#downloading necessary modules\n",
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "\n",
     "import networkx as nx\n",
     "\n",

docs/io/output/how_to_rpacket_tracking.ipynb

@@ -160,7 +160,7 @@
    "outputs": [],
    "source": [
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data"
+    "from tardis.io.atom_data import download_atom_data"
    ]
   },
   {

docs/io/output/how_to_to_hdf.ipynb

@@ -27,7 +27,7 @@
    "outputs": [],
    "source": [
     "from tardis import run_tardis\n",
-    "from tardis.io.atom_data.util import download_atom_data\n",
+    "from tardis.io.atom_data import download_atom_data\n",
     "\n",
     "# We download the atomic data needed to run the simulation\n",
     "download_atom_data('kurucz_cd23_chianti_H_He')\n",