radionets-project · Kevin2 · Jun 12, 2024 · Oct 23, 2023 · Oct 23, 2023 · Oct 23, 2023
diff --git a/.github/workflows/changelog.yml b/.github/workflows/changelog.yml
@@ -12,13 +12,13 @@ jobs:
   changelog:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
       - name: Check for news fragment
         if: ${{ ! contains( github.event.pull_request.labels.*.name, 'no-changelog-needed')}}
-        uses: andstor/file-existence-action@v2
+        uses: andstor/file-existence-action@v3
         with: 
           files: ${{ env.FRAGMENT_NAME }}
           fail: true
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -20,11 +20,11 @@ jobs:
       matrix:
         include:
           - os: ubuntu-latest
-            python-version: "3.9"
+            python-version: "3.10"
             install-method: mamba
 
           - os: ubuntu-latest
-            python-version: "3.10"
+            python-version: "3.11"
             install-method: mamba
             extra-args: ["codecov"]
 
@@ -34,7 +34,7 @@ jobs:
         shell: bash -leo pipefail {0}
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -44,11 +44,11 @@ jobs:
           PYTHON_VERSION: ${{ matrix.python-version }}
         run: |
           # setup correct python version
-          sed -i -e "s/- python=.*/- python=$PYTHON_VERSION/g" environment.yml
+          sed -i -e "s/- python.*/- python=$PYTHON_VERSION/g" environment.yml
 
       - name: mamba setup
         if: matrix.install-method == 'mamba'
-        uses: mamba-org/provision-with-micromamba@v14
+        uses: mamba-org/setup-micromamba@v1
 
       - name: Install dependencies
         run: |
@@ -66,18 +66,19 @@ jobs:
           py.test --cov --cov-report=xml
 
       - name: Upload coverage to Codecov
-        uses: codecov/codecov-action@v3
-        if: contains(matrix.extra-args, 'codecov')
+        uses: codecov/codecov-action@v4
+        env:
+          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
 
   docs:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: "3.10"
 

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
@@ -12,4 +12,4 @@ repos:
     rev: 4.0.1
     hooks:
       - id: flake8
-        args: [--max-line-length=88, "--extend-ignore=E203"]
+        args: [--max-line-length=88, "--extend-ignore=E203,E741"]
diff --git a/CHANGES.rst b/CHANGES.rst
@@ -0,0 +1,88 @@
+Pyvisgen v0.2.0 (2024-04-11)
+============================
+
+
+API Changes
+-----------
+
+
+Bug Fixes
+---------
+
+  - fix baseline num calculation
+  - fix wavelength scaling
+  - fix lm grid calculation
+  - fix gridding so that it fits the numpy fft gridding [`#28 <https://github.com/radionets-project/pyvisgen/pull/28>`__]
+
+
+New Features
+------------
+
+  - implement GPU support for visibility calculations
+  - new grid mode:
+    - when more than one visibility falls into the same pixel, only the first is calculated
+    - define grid before calculation
+  - new dense mode:
+    - calculate visibilities for a dense uv grid
+    - simulate ideal interferometer response
+  - add sensitivity cut in image space:
+    - avoid calculation of pixel values below detection threshold
+    - significantly speed-up simulations
+  - add torch compile to RIME functions [`#28 <https://github.com/radionets-project/pyvisgen/pull/28>`__]
+
+
+Maintenance
+-----------
+
+  - delete unused code and relicts
+  - change from numpy arrays to torch tensors
+  - change some of the keywords to more common phrases inside the toml config
+  - update default data_set.toml
+  - delete old config examples
+  - avoid torch einsum for better readability of the code [`#28 <https://github.com/radionets-project/pyvisgen/pull/28>`__]
+
+
+Refactoring and Optimization
+----------------------------
+
+  - refactor data classes (Visibilities, Baselines)
+  - add observation class, which holds all relevant information
+  - drop scan-wise splitting in visibilities calculations, but split all valid baselines equally
+  - refactor RIME components (currently only uncorrupted available) [`#28 <https://github.com/radionets-project/pyvisgen/pull/28>`__]
+
+
+Pyvisgen v0.1.4 (2023-11-09)
+============================
+
+
+API Changes
+-----------
+
+
+Bug Fixes
+---------
+
+- - fix shape of `num_ifs`
+  - delete additional bin in masking
+  - fix ra dec bug [`#25 <https://github.com/radionets-project/pyvisgen/pull/25>`__]
+
+
+New Features
+------------
+
+- update ci:
+    - change conda to mamba
+    - install towncrier [`#24 <https://github.com/radionets-project/pyvisgen/pull/24>`__]
+
+
+Maintenance
+-----------
+
+- - update readme [`#26 <https://github.com/radionets-project/pyvisgen/pull/26>`__]
+
+- - add docstrings
+  - delete unused files [`#27 <https://github.com/radionets-project/pyvisgen/pull/27>`__]
+
+
+Refactoring and Optimization
+----------------------------
diff --git a/config/astar.toml b/config/astar.toml
diff --git a/config/default.toml b/config/default.toml
diff --git a/config/data_set.toml → config/default_data_set.toml b/config/data_set.toml → config/default_data_set.toml
@@ -1,26 +1,31 @@
 [sampling_options]
-mode = "basic"
+mode = "full"
+device = "cpu"
+seed = 1337
 layout = "vla"
 img_size = 128
 fov_center_ra = [100, 110]
 fov_center_dec = [30, 40]
-fov_size = 100 # max res 0.1
+fov_size = 100
 corr_int_time = 30.0
 scan_start = ["16-01-2020 00:04:01", "16-01-2020 08:59:59"]
 scan_duration = [60, 90]
-scans = [1, 2]
-interval_length = 360
-base_freq = 15.21e9
-frequsel = [0e8, 0.8e8, 1.44e8, 2.08e8]
+num_scans = [1, 2]
+scan_separation = 360
+ref_frequency = 15.21e9
+frequency_offsets = [0e8, 0.8e8, 1.44e8, 2.08e8]
 bandwidths = [6.4e7, 6.4e7, 6.4e7, 6.4e7]
-corrupted = true
+noisy = 0
+corrupted = false
+sensitivity_cut = 1e-6
 
 [bundle_options]
-in_path = "build/skies/"
+in_path = "skies/"
 out_path_fits = "build/uvfits"
 out_path_gridded = "build/gridded"
 num_test_images = 500
 bundle_size = 100
 train_valid_split = 0.2
 grid_size = 128
-amp_phase = true
+grid_fov = 100
+amp_phase = false
diff --git a/config/test.toml b/config/test.toml
diff --git a/config/vlba.toml b/config/vlba.toml
diff --git a/docs/changes/24.feature.rst b/docs/changes/24.feature.rst
diff --git a/docs/changes/28.bugfix.rst b/docs/changes/28.bugfix.rst
@@ -0,0 +1,4 @@
+- fix baseline num calculation
+- fix wavelength scaling
+- fix lm grid calculation
+- fix gridding so that it fits the numpy fft gridding
diff --git a/docs/changes/28.feature.rst b/docs/changes/28.feature.rst
@@ -0,0 +1,11 @@
+- implement GPU support for visibility calculations
+- new grid mode:
+  - when more than one visibility falls into the same pixel, only the first is calculated
+  - define grid before calculation
+- new dense mode:
+  - calculate visibilities for a dense uv grid
+  - simulate ideal interferometer response
+- add sensitivity cut in image space:
+  - avoid calculation of pixel values below detection threshold
+  - significantly speed-up simulations
+- add torch compile to RIME functions
diff --git a/docs/changes/28.maintenance.rst b/docs/changes/28.maintenance.rst
@@ -0,0 +1,7 @@
+- delete unused code and relicts
+- change from numpy arrays to torch tensors
+- change some of the keywords to more common phrases inside the toml config
+- update default data_set.toml
+- delete old config examples
+- avoid torch einsum for better readability of the code
+- update `ci.yml` and `workflow.yml` for node20
diff --git a/docs/changes/28.optimization.rst b/docs/changes/28.optimization.rst
@@ -0,0 +1,4 @@
+- refactor data classes (Visibilities, Baselines)
+- add observation class, which holds all relevant information
+- drop scan-wise splitting in visibilities calculations, but split all valid baselines equally
+- refactor RIME components (currently only uncorrupted available)
diff --git a/pyvisgen/fits/data.py b/pyvisgen/fits/data.py
@@ -1,6 +1,7 @@
+from pathlib import Path
+
 import numpy as np
 from astropy.io import fits
-from pathlib import Path
 
 
 class fits_data: