Use uv for Python environment

Author: petebachant

.calkit/env-locks/py.txt

@@ -0,0 +1,14 @@
+contourpy==1.3.3
+cycler==0.12.1
+fonttools==4.59.1
+kiwisolver==1.4.9
+matplotlib==3.10.5
+numpy==2.3.2
+packaging==25.0
+pandas==2.3.1
+pillow==11.3.0
+pyparsing==3.2.3
+python-dateutil==2.9.0.post0
+pytz==2025.2
+six==1.17.0
+tzdata==2025.2

.calkit/env-locks/py.yml

@@ -5,21 +5,21 @@
     "RepoDigests": [
         "texlive/texlive@sha256:9080025bd1762766c229ed7543107aa7799a82fa65b0643c4191305677863859"
     ],
-    "Architecture": "amd64",
+    "Architecture": "arm64",
     "Os": "linux",
-    "Size": 5197757512,
+    "Size": 2465928923,
     "RootFS": {
         "Type": "layers",
         "Layers": [
-            "sha256:612c2b206201f241fa381be8ec4426c972d1f1f87aa0a03c6069e3208234cdd8",
-            "sha256:f235b594b1218e7983aa6603bc5fd152305a90659847a7790d6f905b18503cf5",
-            "sha256:33449c67d1f954e1a00e30c99e92ba2841cf2ea88f2d0ebddf4911140e46c676",
+            "sha256:9d0dd3a5ed802836311cd0db8808b203821cf667f4abc13b09a4bdfe2e6d4e27",
+            "sha256:4d9f50bad01fd6cdbc25818ee80ab8c34841dd5f73a2bc7855118f550ec97ece",
+            "sha256:1582e2b661d185b296c9f3f97e584f3089099434d0cd5690987a6730fbcb0177",
             "sha256:5f70bf18a086007016e948b04aed3b82103a36bea41755b6cddfaf10ace3c6ef",
-            "sha256:ed8ba60461943d8baa2c622b730294f7b717199f998c783063e5f9db232245e0",
-            "sha256:f48fed1f5cceccd41a655d62bf282143f0d16aa6e84a1c68a8abcefea04c7a34",
-            "sha256:049fa4b5ad5f9b5f6506452fc5565d6269de882eb30e6a4317144e517584afcf",
-            "sha256:72569cd299896a7599bf2e4f7edb0423f0c36d46f014a138dcc8da4e3e7bf573",
-            "sha256:2756095a65922d1b03af7c30a3424e9fe5ecb45ac06de1f9ff169b114da4a96a"
+            "sha256:5e29423f9aabd412d46a6ab5c11350d500d28c873047f5a587a9d1f823428ee9",
+            "sha256:ef76807910ef7124b81c287007d336ee01898224ccf1da60308fc2b0a1a9cadc",
+            "sha256:5a824a1ec9bb89001dd6c77033c29f38252da1f216520fab448e61a098268976",
+            "sha256:4820f6792e6cb541113cfb2778757a9d93acdd3ad80997d510e294fd480b2950",
+            "sha256:7b37c02f7d5213a671c2d5fe67dc52449710d2e6df5661bb1e7814c90f9b2361"
         ]
     },
     "DockerfileMD5": null,

.calkit/env-locks/tex.json

@@ -29,16 +29,8 @@ jobs:
         run: |
           git config user.name github-actions[bot]
           git config user.email 41898282+github-actions[bot]@users.noreply.github.com
-      - name: Set up Docker Buildx
-        uses: docker/setup-buildx-action@v3
       - name: Setup uv
         uses: astral-sh/setup-uv@v5
-      - name: Setup Miniforge
-        uses: conda-incubator/setup-miniconda@v3
-        with:
-          miniforge-version: latest
-          auto-activate-base: true
-          conda-remove-defaults: true
       - name: Install Calkit
         run: uv tool install calkit-python
       - name: Restore DVC cache
@@ -53,6 +45,7 @@ jobs:
         env:
           CALKIT_DVC_TOKEN: ${{ secrets.CALKIT_DVC_TOKEN }}
       - run: calkit dvc pull
+        continue-on-error: true
       - run: calkit run
       # If running on a PR, push to that branch, else push to main
       - run: calkit save -am "Run pipeline"

.github/workflows/run.yml

@@ -4,9 +4,10 @@ This is a basic Calkit example project,
 which includes data collection,
 figure generation,
 and LaTeX article compilation,
-all part of a single reproducible DVC pipeline.
+all part of a single reproducible pipeline.
 
-You can also view this project on [calkit.io](https://calkit.io/calkit/example-basic).
+You can also view this project on
+[calkit.io](https://calkit.io/calkit/example-basic).
 
 This project can be reproduced with:
 

README.md

@@ -5,14 +5,16 @@ description: A basic Calkit example project.
 git_repo_url: https://github.com/calkit/example-basic
 dependencies:
   - docker
-  - conda
+  - uv
 questions:
   - Can we make reproducibility simple?
 environments:
   py:
-    path: environment.yml
-    kind: conda
-    description: A Python environment
+    path: requirements.txt
+    kind: uv-venv
+    python: "3.13"
+    prefix: .venv
+    description: A Python virtual environment managed with uv
   tex:
     kind: docker
     image: texlive/texlive:latest-full

calkit.yaml

@@ -3,39 +3,39 @@ stages:
   collect-data:
     cmd: calkit xenv -n py --no-check -- python scripts/collect-data.py
     deps:
-    - path: .calkit/env-locks/py.yml
+    - path: .calkit/env-locks/py.txt
       hash: md5
-      md5: 05f53fdb70c16e7be5ce9c85e2fa7baa
-      size: 4547
+      md5: de96276868627f6d4aa908b2b4759a56
+      size: 231
     - path: scripts/collect-data.py
       hash: md5
       md5: eeab1328ac4a9df2ef2452d32c1e6cce
       size: 424
     outs:
     - path: data/raw/data.csv
       hash: md5
-      md5: b7ba2e0ce65f893e4db48f9ae156d2cc
-      size: 43611
+      md5: de9fed6f097dc9eeb0d771172c235d11
+      size: 43594
   plot-voltage:
     cmd: calkit xenv -n py --no-check -- python scripts/plot-voltage.py
     deps:
-    - path: .calkit/env-locks/py.yml
+    - path: .calkit/env-locks/py.txt
       hash: md5
-      md5: 05f53fdb70c16e7be5ce9c85e2fa7baa
-      size: 4547
+      md5: de96276868627f6d4aa908b2b4759a56
+      size: 231
     - path: data/raw/data.csv
       hash: md5
-      md5: b7ba2e0ce65f893e4db48f9ae156d2cc
-      size: 43611
+      md5: de9fed6f097dc9eeb0d771172c235d11
+      size: 43594
     - path: scripts/plot-voltage.py
       hash: md5
       md5: 087a567a0c0f6199a908399013d564a1
       size: 297
     outs:
     - path: figures/voltage-time-series.png
       hash: md5
-      md5: 1f35eb0a43dba0169a83d14b873a0c79
-      size: 44615
+      md5: 2bad4528d4d1acace92cdeee39572663
+      size: 40195
   copy-figures-to-paper-dir:
     cmd: cp -r figures paper/figures
     deps:
@@ -56,12 +56,12 @@ stages:
     deps:
     - path: .calkit/env-locks/tex.json
       hash: md5
-      md5: c030e05b4e497d9d15b0cd07c1db16f3
+      md5: 7c034176d0205f486250194d39887994
       size: 1171
     - path: figures
       hash: md5
-      md5: 49feff31a47e2e19bf90299d06f62014.dir
-      size: 44640
+      md5: dda637b5e3496cfe2e567067e3803a76.dir
+      size: 40220
       nfiles: 2
     - path: paper/paper.tex
       hash: md5
@@ -70,8 +70,8 @@ stages:
     outs:
     - path: paper/paper.pdf
       hash: md5
-      md5: bff1721a57af4275b13af9dd8033ad9a
-      size: 95417
+      md5: eade534fc60e0302dc277944db06a83b
+      size: 92533
   _check_env_py:
     cmd: calkit check conda-env --file environment.yml --output 
       .calkit/env-locks/py.yml
@@ -96,19 +96,19 @@ stages:
   _check-env-py:
     cmd: calkit check environment --name py
     deps:
-    - path: environment.yml
+    - path: requirements.txt
       hash: md5
-      md5: 4282ecbec6810eb293bdf62d7f956ffd
-      size: 119
+      md5: 2d0e401b7292d0d218bc567bfb37f9c7
+      size: 24
     outs:
-    - path: .calkit/env-locks/py.yml
+    - path: .calkit/env-locks/py.txt
       hash: md5
-      md5: 05f53fdb70c16e7be5ce9c85e2fa7baa
-      size: 4547
+      md5: de96276868627f6d4aa908b2b4759a56
+      size: 231
   _check-env-tex:
     cmd: calkit check environment --name tex
     outs:
     - path: .calkit/env-locks/tex.json
       hash: md5
-      md5: c030e05b4e497d9d15b0cd07c1db16f3
+      md5: 7c034176d0205f486250194d39887994
       size: 1171

dvc.lock

@@ -2,9 +2,9 @@ stages:
   _check-env-py:
     cmd: calkit check environment --name py
     deps:
-      - environment.yml
+      - requirements.txt
     outs:
-      - .calkit/env-locks/py.yml:
+      - .calkit/env-locks/py.txt:
           cache: false
           persist: true
     always_changed: true
@@ -25,7 +25,7 @@ stages:
       scripts/collect-data.py
     deps:
       - scripts/collect-data.py
-      - .calkit/env-locks/py.yml
+      - .calkit/env-locks/py.txt
     outs:
       - data/raw/data.csv
     desc: Automatically generated from the 'collect-data' stage in 
@@ -35,7 +35,7 @@ stages:
       scripts/plot-voltage.py
     deps:
       - scripts/plot-voltage.py
-      - .calkit/env-locks/py.yml
+      - .calkit/env-locks/py.txt
       - data/raw/data.csv
     outs:
       - figures/voltage-time-series.png

dvc.yaml

@@ -0,0 +1,3 @@
+pandas
+matplotlib
+numpy