Year plan / Gantt chart

.github/workflows/cd.yml

@@ -34,7 +34,7 @@ jobs:
           fetch-depth: 0
           persist-credentials: false
 
-      - uses: hynek/build-and-inspect-python-package@fe0a0fb1925ca263d076ca4f2c13e93a6e92a33e # v2
+      - uses: hynek/build-and-inspect-python-package@fe0a0fb1925ca263d076ca4f2c13e93a6e92a33e # v2.17.0
 
   publish:
     needs: [dist]

.github/workflows/ci.yml

@@ -93,29 +93,28 @@ jobs:
       - name: Run zizmor
         uses: zizmorcore/zizmor-action@71321a20a9ded102f6e9ce5718a2fcec2c4f70d8 # v0.5.2
 
-
-#   typechecking:
-#     name: "TypeChecking: pixi run typing"
-#     runs-on: ubuntu-latest
-#     if: false
-#     needs: cache-pixi-lock
-#     steps:
-#       - uses: actions/checkout@v4
-#         with:
-#           fetch-depth: 0
-#       - uses: Parcels-code/pixi-lock/restore@38495788b79a5ff26009aecc15daa9a8310b8832 # v0.1.0
-#         with:
-#           cache-key: ${{ needs.cache-pixi-lock.outputs.cache-key }}
-#       - uses: prefix-dev/setup-pixi@v0.9.4
-#         with:
-#           cache: true
-#           pixi-version: ${{ needs.cache-pixi-lock.outputs.pixi-version }}
-#           cache-write: ${{ github.event_name == 'push' && github.ref_name == 'main' }}
-#       - name: Typechecking
-#         run: pixi run typing --non-interactive --html-report mypy-report
-#       - name: Upload test results
-#         if: ${{ always() }} # Upload even on mypy error
-#         uses: actions/upload-artifact@v4
-#         with:
-#           name: Mypy report
-#           path: mypy-report
+  typechecking:
+    name: "TypeChecking: pixi run typing"
+    runs-on: ubuntu-latest
+    needs: cache-pixi-lock
+    steps:
+      - uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
+        with:
+          fetch-depth: 0
+          persist-credentials: false
+      - uses: Parcels-code/pixi-lock/restore@38495788b79a5ff26009aecc15daa9a8310b8832 # v0.1.0
+        with:
+          cache-key: ${{ needs.cache-pixi-lock.outputs.cache-key }}
+      - uses: prefix-dev/setup-pixi@a0af7a228712d6121d37aba47adf55c1332c9c2e # v0.9.4
+        with:
+          cache: true
+          pixi-version: ${{ needs.cache-pixi-lock.outputs.pixi-version }}
+          cache-write: ${{ github.event_name == 'push' && github.ref_name == 'main' }}
+      - name: Typechecking
+        run: pixi run typing --non-interactive --html-report mypy-report
+      - name: Upload test results
+        if: ${{ always() }} # Upload even on mypy error
+        uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4
+        with:
+          name: Mypy report
+          path: mypy-report

docs/user-guide/developer-content/yearplan-26-27/gantt_2026-27.md

@@ -0,0 +1,65 @@
+```mermaid
+---
+config:
+  theme: default
+---
+%%{init: { 'themeVariables': {
+    'doneTaskBkgColor': '#d3d3d3',
+    'activeTaskBkgColor': '#85C1E9',
+    'taskBkgColor': '#F7DC6F',
+    'critBorderColor': '#ff0000'
+}}}%%
+gantt
+    title VirtualShip Year Plan, 2026 - 2027
+    dateFormat  YYYY-MM-DD
+    tickInterval 3month
+    weekday monday
+
+    section NKO scale-up
+    Course inventory    :active, 2026-03-01, 30d
+    Computing facilities inventory :active, 2026-03-19, 50d
+    Showcases           :active, 2026-03-19, 50d
+    Train-the-trainer content dev   :active, 2026-04-01, 150d
+    First train-the-trainer workshops :active, 2026-08-01, 62d
+    SWRM (UU-internal) train-the-trainer :done, 2026-10-01, 60d
+    [UvA] Biological Oceanography :active, 2026-12-01, 60d
+    [UvA] Benthic Ecosystems :active, 2027-01-01, 60d
+    [TUD] Physical Oceanography :active, 2026-09-01, 60d
+    [TUD] Atmosphere and Ocean Dynamics :active, 2026-11-01, 60d
+    [WUR] Research Methods in Marine Science :active, 2027-05-01, 60d
+    [RUG] Introductory Course in Biological Oceanography :active, 2027-09-01, 60d
+    [RUG] Marine Biology :active, 2027-11-01, 60d
+
+    section Real-life expeditions
+    Jamie (AWvB) :, 2026-07-31, 7d
+    Gonçalo (AWvB) :, 2026-07-31, 7d
+    Gonçalo (AWvB) :, 2026-06-22, 7d
+    Emma (AWvB) :, 2026-06-22, 7d
+    Gonçalo (NOC) :, 2026-11-01, 7d
+
+    section UU courses
+    OSL :active, 2026-11-01, 30d
+    OF  :active, 2026-11-15, 30d
+    DyOc :active, 2027-02-15, 30d
+
+    section Conferences and workshops
+    EGU :, 2027-04-15, 20d
+    NAC :, 2027-03-15, 20d
+    EMBRACER Researcher training :, 2026-12-01, 20d
+    Open Science Festival :, 2026-10-01, 20d
+    National Ocean Sciences :, 2026-06-08, 20d
+
+    section Papers
+    JOSS in review?! :active, 2026-04-01, 150d
+    DBR2 in prep. :active, 2026-03-01, 90d
+    Oceanogr. in prep. :active, 2026-03-01, 70d
+    OSSE-MHW :active, 2026-05-01, 180d
+
+
+    section Code dev
+    v0.3 enhancements (new sensors on instruments etc.) :done, 2026-06-01, 35d
+    post-DyOc enhancements :done, 2026-04-01, 35d
+    v1 dev       :done, 2026-05-01, 90d
+    v1 enhancements (new instruments, e.g. gliders, atmospheric) :done, 2026-08-01, 90d
+
+```

pixi.toml

@@ -93,12 +93,21 @@ lint = "pre-commit run --all-files"
 [feature.typing.dependencies]
 mypy = "*"
 lxml = "*"
+pandas-stubs="*"
+types-PyYAML="*"
+scipy-stubs="*"
+types-openpyxl = "*"
+types-psutil = "*"
+types-python-dateutil = "*"
+
+[feature.typing.pypi-dependencies]
+types-xlrd = "*"
 
 [feature.typing.tasks]
 typing = "mypy src/virtualship --install-types"
 
 [environments]
-default = { features = ["test", "notebooks", "typing", "pre-commit", "analysis"] }
+default = { features = ["test", "notebooks", "typing", "pre-commit", "analysis"] }
 test-latest = { features = ["test"], solve-group = "test" }
 test-py310 = { features = ["test", "py310"] }
 test-py311 = { features = ["test", "py311"] }

pyproject.toml

@@ -117,3 +117,33 @@ ignore = [
     # TODO: Remove later
     "D100", "D103"
 ]
+
+
+[tool.mypy]
+files = ['src']
+disable_error_code = "import-untyped"
+check_untyped_defs = true
+show_error_context = true
+warn_redundant_casts = true
+warn_unused_configs = true
+warn_unused_ignores = true
+
+exclude = [
+  # Temporarily exclude files. As we improve typechecking across the codebase, remove these
+  "src/virtualship/cli/_plan.py",
+  "src/virtualship/cli/_run.py",
+  "src/virtualship/cli/commands.py",
+  "src/virtualship/cli/validator_utils.py",
+  "src/virtualship/expedition/simulate_schedule.py",
+  "src/virtualship/instruments/adcp.py",
+  "src/virtualship/instruments/argo_float.py",
+  "src/virtualship/instruments/base.py",
+  "src/virtualship/instruments/ctd.py",
+  "src/virtualship/instruments/drifter.py",
+  "src/virtualship/instruments/ship_underwater_st.py",
+  "src/virtualship/instruments/xbt.py",
+  "src/virtualship/make_realistic/problems/simulator.py",
+  "src/virtualship/models/checkpoint.py",
+  "src/virtualship/models/expedition.py",
+  "src/virtualship/utils.py",
+]