Migrate to pure Julia (#16)

* Migrate to pure julia (#15)

* [WIP] remove pycall dependencies

* bump version

* update Sleipnir version

* update dependencies versions to align with Sleipnir

* update CI

.github/workflows/CI.yml

@@ -22,42 +22,14 @@ jobs:
       fail-fast: false
       matrix:
         version:
-          - '1.9'
-        python: [3.9]
+          - '1.11'
         os:
           - ubuntu-latest
+          - macos-latest
         arch:
           - x64
     steps:
       - uses: actions/checkout@v2
-      - name: Set up Python 🐍 ${{ matrix.python }}
-        uses: actions/setup-python@v2
-        with:
-          python-version: ${{ matrix.python }}  
-      - name: Create environment with micromamba 🐍🖤
-        uses: mamba-org/setup-micromamba@v1
-        with: 
-          micromamba-version: '1.5.6-0'
-          environment-file: ./environment.yml
-          environment-name: oggm_env                # it is recommendable to add both name and yml file. 
-          init-shell: bash
-          cache-environment: true
-#           condarc-file: ./condarc.yml                # If necessary, we can include .condarc to configure environment
-      - name: Test creation of environment with micromamba 🔧🐍🖤
-        run: | 
-            which python
-            conda env export
-        shell: bash -el {0}
-      - name: Update certifi
-        run: | 
-            pip install --upgrade certifi
-        shell: bash -el {0}
-#       - name: Test OGGM installation 🔧🌎 
-#         run: pytest.oggm
-#         shell: bash -el {0}
-      - name: Set ENV Variables for PyCall.jl 🐍 📞
-        run: export PYTHON=/home/runner/micromamba/envs/oggm_env/bin/python
-        shell: bash -el {0}
       - uses: julia-actions/setup-julia@v1
         with:
           version: ${{ matrix.version }}
@@ -69,15 +41,18 @@ jobs:
         with:
           cache-registries: "true"
           cache-compiled: "true"
-      - uses: julia-actions/julia-buildpkg@v1
-        env:
-          PYTHON : /home/runner/micromamba/envs/oggm_env/bin/python
-          # The SSL certificate path can be readed from the action "Check Julia SSL certifications"
-          SSL_CERT_FILE: /etc/ssl/certs/ca-certificates.crt
-      - uses: julia-actions/julia-runtest@v1
-        env:
-          PYTHON : /home/runner/micromamba/envs/oggm_env/bin/python
-          SSL_CERT_FILE: /etc/ssl/certs/ca-certificates.crt
+      - name: Build Julia packages in Ubuntu
+        uses: julia-actions/julia-buildpkg@v1
+        if: matrix.os == 'ubuntu-latest'
+      - name: Build Julia packages in MacOS
+        uses: julia-actions/julia-buildpkg@v1
+        if: matrix.os == 'macos-latest'
+      - name: Run tests in Ubuntu
+        uses: julia-actions/julia-runtest@v1
+        if: matrix.os == 'ubuntu-latest'
+      - name: Run tests in MacOS
+        uses: julia-actions/julia-runtest@v1
+        if: matrix.os == 'macos-latest'
       - uses: julia-actions/julia-processcoverage@v1
       - uses: codecov/codecov-action@v3
         with:

Project.toml

@@ -1,27 +1,25 @@
 name = "Muninn"
 uuid = "4b816528-16ba-4e32-9a2e-3c1bc2049d3a"
 authors = ["Jordi Bolibar <[email protected]>"]
-version = "0.3.0"
+version = "0.4.0"
 
 [deps]
 Dates = "ade2ca70-3891-5945-98fb-dc099432e06a"
 Distributed = "8ba89e20-285c-5b6f-9357-94700520ee1b"
 Infiltrator = "5903a43b-9cc3-4c30-8d17-598619ec4e9b"
 JLD2 = "033835bb-8acc-5ee8-8aae-3f567f8a3819"
 Pkg = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
-PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
 Reexport = "189a3867-3050-52da-a836-e630ba90ab69"
 Revise = "295af30f-e4ad-537b-8983-00126c2a3abe"
 Sleipnir = "f5e6c550-199f-11ee-3608-394420200519"
 Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [compat]
-Infiltrator = "1"
+Infiltrator = "1.8"
 JLD2 = "0.4"
-PyCall = "1"
 Reexport = "1"
 Revise = "3"
-Sleipnir = "0.6"
+Sleipnir = "0.7.0"
 julia = "1.9"
 
 [extras]

src/Muninn.jl

@@ -9,7 +9,6 @@ using Infiltrator
 import Pkg
 using Distributed
 using Dates
-using PyCall
 
 ### ODINN.jl dependencies ###
 using Reexport

src/models/mass_balance/mass_balance_utils.jl

@@ -8,14 +8,14 @@ end
 function MB_timestep(model::Model, glacier::G, step::F, t::F) where {F <: AbstractFloat, G <: AbstractGlacier}
     # First we get the dates of the current time and the previous step
     period = partial_year(Day, t - step):Day(1):partial_year(Day, t)
-    climate_step::PyObject = get_cumulative_climate(glacier.climate.sel(time=period))
+    climate_step::Dict{String, Any} = get_cumulative_climate(glacier.climate[At(period)])
     # Convert climate dataset to 2D based on the glacier's DEM
-    climate_2D_step::PyObject = downscale_2D_climate(climate_step, glacier)
+    climate_2D_step::Climate2Dstep = downscale_2D_climate(climate_step, glacier)
     MB::Matrix{F} = compute_MB(model.mb_model, climate_2D_step)
     return MB
 end
 
-         
+
 function MB_timestep!(model::Model, glacier::G, step::F, t; batch_id::Union{Nothing, I} = nothing) where {I <: Integer, F <: AbstractFloat, G <: AbstractGlacier}
     # First we get the dates of the current time and the previous step
     period = partial_year(Day, t - step):Day(1):partial_year(Day, t)