From 616e642bfeca9a846b57f44da099f84a0f23917f Mon Sep 17 00:00:00 2001 From: "github-actions[bot]" <41898282+github-actions[bot]@users.noreply.github.com> Date: Tue, 23 Jan 2024 14:34:36 +0100 Subject: [PATCH 01/22] Update pixi lock file (#979) Update pixi dependencies to the latest version. Co-authored-by: GitHub --- pixi.lock | 3407 +++++++++++++++++++++++++++-------------------------- 1 file changed, 1707 insertions(+), 1700 deletions(-) diff --git a/pixi.lock b/pixi.lock index d9ecf8b92..ac270a7a4 100644 --- a/pixi.lock +++ b/pixi.lock @@ -2283,7 +2283,7 @@ package: - azure-core-cpp >=1.10.3,<2.0a0 - libgcc-ng >=12 - libstdcxx-ng >=12 - - libxml2 >=2.12.1,<2.13.0a0 + - libxml2 >=2.12.1,<3.0.0a0 - openssl >=3.2.0,<4.0a0 url: https://conda.anaconda.org/conda-forge/linux-64/azure-storage-common-cpp-12.5.0-hb858b4b_2.conda hash: @@ -2306,7 +2306,7 @@ package: - __osx >=10.9 - azure-core-cpp >=1.10.3,<2.0a0 - libcxx >=16.0.6 - - libxml2 >=2.12.1,<2.13.0a0 + - libxml2 >=2.12.1,<3.0.0a0 - openssl >=3.2.0,<4.0a0 url: https://conda.anaconda.org/conda-forge/osx-64/azure-storage-common-cpp-12.5.0-hf4badfb_2.conda hash: @@ -2329,7 +2329,7 @@ package: - __osx >=10.9 - azure-core-cpp >=1.10.3,<2.0a0 - libcxx >=16.0.6 - - libxml2 >=2.12.1,<2.13.0a0 + - libxml2 >=2.12.1,<3.0.0a0 - openssl >=3.2.0,<4.0a0 url: https://conda.anaconda.org/conda-forge/osx-arm64/azure-storage-common-cpp-12.5.0-h607ffeb_2.conda hash: @@ -2535,16 +2535,16 @@ package: timestamp: 1695447533107 - 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md5: e9b31d3ab1b0dd5fd8c24419f6560b90 - sha256: ab89b70aa3d31a9cacf0e91a7c7a6f8cc45d866d71cdcee1219561cff0e8a9a5 + md5: 7103106672d9b25f2b2270797307698e + sha256: e314765c30225ccff7a2ddfc4d01de424b955bab595ca8b1104d02f53d53a26d build: pyhd8ed1ab_0 arch: x86_64 subdir: win-64 build_number: 0 constrains: - - flox >=0.5 + - distributed >=2022.7 - hdf5 >=1.12 - - iris >=3.2 - h5netcdf >=1.0 - - h5py >=3.6 - - distributed >=2022.7 - - pint >=0.19 + - toolz >=0.12 - nc-time-axis >=1.4 - - scipy >=1.8 + - cartopy >=0.20 + - bottleneck >=1.3 + - pint >=0.19 - seaborn >=0.11 - - dask-core >=2022.7 - - netcdf4 >=1.6.0 - numba >=0.55 - - bottleneck >=1.3 - - cartopy >=0.20 - - sparse >=0.13 + - matplotlib-base >=3.5 - zarr >=2.12 + - sparse >=0.13 - cftime >=1.6 - - toolz >=0.12 - - matplotlib-base >=3.5 + - scipy >=1.8 + - h5py >=3.6 + - iris >=3.2 + - netcdf4 >=1.6.0 + - dask-core >=2022.7 + - flox >=0.5 license: Apache-2.0 license_family: APACHE noarch: python - size: 724567 - timestamp: 1702073071866 + size: 730939 + timestamp: 1705615455494 - platform: linux-64 name: xcb-util version: 0.4.0 From 8af3073ee0d78e8c31f042214d0eeabca8dba11a Mon Sep 17 00:00:00 2001 From: Hofer-Julian <30049909+Hofer-Julian@users.noreply.github.com> Date: Tue, 23 Jan 2024 15:55:00 +0100 Subject: [PATCH 02/22] Auto update Julia manifest (#980) As discussed: https://github.com/Deltares/Ribasim/pull/978#pullrequestreview-1838741269 --- .github/workflows/core_tests.yml | 2 +- .github/workflows/docs.yml | 2 +- .github/workflows/julia_auto_update.yml | 31 +++++++++++++++++++++++++ pixi.toml | 1 + 4 files changed, 34 insertions(+), 2 deletions(-) create mode 100644 .github/workflows/julia_auto_update.yml diff --git a/.github/workflows/core_tests.yml b/.github/workflows/core_tests.yml index 50015322d..9e57902fb 100644 --- a/.github/workflows/core_tests.yml +++ b/.github/workflows/core_tests.yml @@ -1,7 +1,7 @@ name: Julia Tests on: push: - branches: [main, update/pixi-lock] + branches: [main, update/pixi-lock, update/julia-manifest] paths-ignore: [".teamcity/**"] tags: ["*"] pull_request: diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml index 4497abdda..0bba37774 100644 --- a/.github/workflows/docs.yml +++ b/.github/workflows/docs.yml @@ -1,7 +1,7 @@ name: Docs on: push: - branches: [main, update/pixi-lock] + branches: [main, update/pixi-lock, update/julia-manifest] paths-ignore: [".teamcity/**"] pull_request: merge_group: diff --git a/.github/workflows/julia_auto_update.yml b/.github/workflows/julia_auto_update.yml new file mode 100644 index 000000000..42de6be7e --- /dev/null +++ b/.github/workflows/julia_auto_update.yml @@ -0,0 +1,31 @@ +name: Julia auto update + +on: + schedule: + # At 03:00 on day 1 of the month + - cron: "0 3 1 * *" + # on demand + workflow_dispatch: + +jobs: + auto-update: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + with: + ssh-key: ${{ secrets.SSH_PRIVATE_KEY }} + - uses: prefix-dev/setup-pixi@v0.4.3 + with: + pixi-version: "latest" + - name: Update pixi lock file + run: | + pixi run update-manifest-julia + pixi install + - uses: peter-evans/create-pull-request@v5 + with: + token: ${{ secrets.GITHUB_TOKEN }} + branch: update/julia-manifest + title: Update Julia manifest + commit-message: "Update Julia manifest" + body: Update Julia dependencies to the latest version. + author: "GitHub " diff --git a/pixi.toml b/pixi.toml index 3a3fd6447..27342235e 100644 --- a/pixi.toml +++ b/pixi.toml @@ -29,6 +29,7 @@ install-without-pre-commit = { depends_on = [ install = { depends_on = ["install-without-pre-commit", "install-pre-commit"] } # Instantiate update-registry-julia = "julia --eval='using Pkg; Registry.update()'" +update-manifest-julia = "julia --eval='using Pkg; Pkg.update()'" instantiate-julia = "julia --project --eval='using Pkg; Pkg.instantiate()'" initialize-julia = { depends_on = [ "update-registry-julia", From 9e0435353540f4fb1891b79ad5aec81b8d18a156 Mon Sep 17 00:00:00 2001 From: Hofer-Julian Date: Tue, 23 Jan 2024 16:12:26 +0100 Subject: [PATCH 03/22] Fix copy paste mistake --- .github/workflows/julia_auto_update.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/julia_auto_update.yml b/.github/workflows/julia_auto_update.yml index 42de6be7e..d745eb34c 100644 --- a/.github/workflows/julia_auto_update.yml +++ b/.github/workflows/julia_auto_update.yml @@ -17,7 +17,7 @@ jobs: - uses: prefix-dev/setup-pixi@v0.4.3 with: pixi-version: "latest" - - name: Update pixi lock file + - name: Update Julia manifest file run: | pixi run update-manifest-julia pixi install From d9288704268a2a40817ee951ae43b1a9ec3ae4d0 Mon Sep 17 00:00:00 2001 From: Martijn Visser Date: Wed, 24 Jan 2024 10:01:10 +0100 Subject: [PATCH 04/22] Julia manifest update the root environment (#981) Instead to the global one. Now it works, I manually triggered the action from this branch in #982. --------- Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: GitHub --- Manifest.toml | 80 +++++++++++++++++++++++++++------------------------ pixi.toml | 2 +- 2 files changed, 43 insertions(+), 39 deletions(-) diff --git a/Manifest.toml b/Manifest.toml index a4e91fb27..b7c0d6488 100644 --- a/Manifest.toml +++ b/Manifest.toml @@ -138,9 +138,9 @@ version = "0.1.5" [[deps.Bzip2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "19a35467a82e236ff51bc17a3a44b69ef35185a2" +git-tree-sha1 = "9e2a6b69137e6969bab0152632dcb3bc108c8bdd" uuid = "6e34b625-4abd-537c-b88f-471c36dfa7a0" -version = "1.0.8+0" +version = "1.0.8+1" [[deps.CPUSummary]] deps = ["CpuId", "IfElse", "PrecompileTools", "Static"] @@ -190,9 +190,9 @@ version = "0.7.3" [[deps.CodecZstd]] deps = ["TranscodingStreams", "Zstd_jll"] -git-tree-sha1 = "f69e46bf7b307d15a896b57d5b3321c01cd64923" +git-tree-sha1 = "23373fecba848397b1705f6183188a0c0bc86917" uuid = "6b39b394-51ab-5f42-8807-6242bab2b4c2" -version = "0.8.1" +version = "0.8.2" [[deps.CommonSolve]] git-tree-sha1 = "0eee5eb66b1cf62cd6ad1b460238e60e4b09400c" @@ -207,9 +207,9 @@ version = "0.3.0" [[deps.Compat]] deps = ["TOML", "UUIDs"] -git-tree-sha1 = "ed2ebb1ff7550226ddb584ba8352facf8d9ffb22" +git-tree-sha1 = "75bd5b6fc5089df449b5d35fa501c846c9b6549b" uuid = "34da2185-b29b-5c13-b0c7-acf172513d20" -version = "4.11.0" +version = "4.12.0" weakdeps = ["Dates", "LinearAlgebra"] [deps.Compat.extensions] @@ -309,9 +309,9 @@ uuid = "a10d1c49-ce27-4219-8d33-6db1a4562965" version = "2.5.0" [[deps.DataAPI]] -git-tree-sha1 = "8da84edb865b0b5b0100c0666a9bc9a0b71c553c" +git-tree-sha1 = "abe83f3a2f1b857aac70ef8b269080af17764bbe" uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a" -version = "1.15.0" +version = "1.16.0" [[deps.DataFrames]] deps = ["Compat", "DataAPI", "DataStructures", "Future", "InlineStrings", "InvertedIndices", "IteratorInterfaceExtensions", "LinearAlgebra", "Markdown", "Missings", "PooledArrays", "PrecompileTools", "PrettyTables", "Printf", "REPL", "Random", "Reexport", "SentinelArrays", "SortingAlgorithms", "Statistics", "TableTraits", "Tables", "Unicode"] @@ -355,15 +355,15 @@ uuid = "ade2ca70-3891-5945-98fb-dc099432e06a" [[deps.Dictionaries]] deps = ["Indexing", "Random", "Serialization"] -git-tree-sha1 = "e82c3c97b5b4ec111f3c1b55228cebc7510525a2" +git-tree-sha1 = "5bde104a45593207307e1481a58e0339d4643fca" uuid = "85a47980-9c8c-11e8-2b9f-f7ca1fa99fb4" -version = "0.3.25" +version = "0.3.26" [[deps.DiffEqBase]] deps = ["ArrayInterface", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces"] -git-tree-sha1 = "044648af911974c3928058c1f8c83f159dece274" +git-tree-sha1 = "6af33c2eb7478db06bcf5c810e6f3dda53aac2ac" uuid = "2b5f629d-d688-5b77-993f-72d75c75574e" -version = "6.145.6" +version = "6.146.0" [deps.DiffEqBase.extensions] DiffEqBaseChainRulesCoreExt = "ChainRulesCore" @@ -598,9 +598,9 @@ version = "1.9.0" [[deps.HiGHS]] deps = ["HiGHS_jll", "MathOptInterface", "PrecompileTools", "SparseArrays"] -git-tree-sha1 = "fce13308f09771b160232903cad57be39a8a0ebb" +git-tree-sha1 = "2b650f670ad691b94f506e88b4f3ab591a13f809" uuid = "87dc4568-4c63-4d18-b0c0-bb2238e4078b" -version = "1.7.5" +version = "1.8.0" [[deps.HiGHS_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl"] @@ -622,9 +622,9 @@ version = "1.24.2" [[deps.IOCapture]] deps = ["Logging", "Random"] -git-tree-sha1 = "d75853a0bdbfb1ac815478bacd89cd27b550ace6" +git-tree-sha1 = "8b72179abc660bfab5e28472e019392b97d0985c" uuid = "b5f81e59-6552-4d32-b1f0-c071b021bf89" -version = "0.2.3" +version = "0.2.4" [[deps.IfElse]] git-tree-sha1 = "debdd00ffef04665ccbb3e150747a77560e8fad1" @@ -691,9 +691,9 @@ version = "1.0.0" [[deps.JLD2]] deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "Pkg", "PrecompileTools", "Printf", "Reexport", "Requires", "TranscodingStreams", "UUIDs"] -git-tree-sha1 = "853b9e0b876e8c7093a824c4f83c619d23525e64" +git-tree-sha1 = "7c0008f0b7622c6c0ee5c65cbc667b69f8a65672" uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819" -version = "0.4.43" +version = "0.4.45" [[deps.JLLWrappers]] deps = ["Artifacts", "Preferences"] @@ -900,9 +900,9 @@ weakdeps = ["ChainRulesCore", "ForwardDiff", "SpecialFunctions"] [[deps.LoweredCodeUtils]] deps = ["JuliaInterpreter"] -git-tree-sha1 = "38756922d32476c8f41f73560b910fc805a5a103" +git-tree-sha1 = "20ce1091ba18bcdae71ad9b71ee2367796ba6c48" uuid = "6f1432cf-f94c-5a45-995e-cdbf5db27b0b" -version = "2.4.3" +version = "2.4.4" [[deps.Lz4_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -918,9 +918,9 @@ version = "2024.0.0+0" [[deps.MacroTools]] deps = ["Markdown", "Random"] -git-tree-sha1 = "b211c553c199c111d998ecdaf7623d1b89b69f93" +git-tree-sha1 = "2fa9ee3e63fd3a4f7a9a4f4744a52f4856de82df" uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09" -version = "0.5.12" +version = "0.5.13" [[deps.ManualMemory]] git-tree-sha1 = "bcaef4fc7a0cfe2cba636d84cda54b5e4e4ca3cd" @@ -1025,10 +1025,10 @@ uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908" version = "1.2.0" [[deps.NonlinearSolve]] -deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "EnumX", "FastBroadcast", "FastClosures", "FiniteDiff", "ForwardDiff", "LazyArrays", "LineSearches", "LinearAlgebra", "LinearSolve", "MaybeInplace", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "SimpleNonlinearSolve", "SparseArrays", "SparseDiffTools", "StaticArrays", "UnPack"] -git-tree-sha1 = "72b036b728461272ae1b1c3f7096cb4c319d8793" +deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "FastBroadcast", "FastClosures", "FiniteDiff", "ForwardDiff", "LazyArrays", "LineSearches", "LinearAlgebra", "LinearSolve", "MaybeInplace", "PrecompileTools", "Preferences", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SparseArrays", "SparseDiffTools", "StaticArraysCore", "TimerOutputs"] +git-tree-sha1 = "78bdd3a4a62865cf43c53d63783b0cbfddcdbbe6" uuid = "8913a72c-1f9b-4ce2-8d82-65094dcecaec" -version = "3.4.0" +version = "3.5.0" [deps.NonlinearSolve.extensions] NonlinearSolveBandedMatricesExt = "BandedMatrices" @@ -1203,9 +1203,9 @@ version = "1.3.4" [[deps.RecursiveArrayTools]] deps = ["Adapt", "ArrayInterface", "DocStringExtensions", "GPUArraysCore", "IteratorInterfaceExtensions", "LinearAlgebra", "RecipesBase", "SparseArrays", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"] -git-tree-sha1 = "4943624c0e437ddf6362a82e5319bc8e83d80857" +git-tree-sha1 = "dd7fc1923fde0cc6cdff451352d17924b0704ca1" uuid = "731186ca-8d62-57ce-b412-fbd966d074cd" -version = "3.5.2" +version = "3.5.4" [deps.RecursiveArrayTools.extensions] RecursiveArrayToolsFastBroadcastExt = "FastBroadcast" @@ -1291,9 +1291,9 @@ version = "3.43.0+0" [[deps.SciMLBase]] deps = ["ADTypes", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FillArrays", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "TruncatedStacktraces"] -git-tree-sha1 = "b2714ddd879525c825f427e861f5059a96b287f7" +git-tree-sha1 = "de41474ac529bf81598e064587421cc5ebc28fa0" uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462" -version = "2.18.0" +version = "2.20.0" [deps.SciMLBase.extensions] SciMLBaseChainRulesCoreExt = "ChainRulesCore" @@ -1344,16 +1344,18 @@ deps = ["Distributed", "Mmap", "Random", "Serialization"] uuid = "1a1011a3-84de-559e-8e89-a11a2f7dc383" [[deps.SimpleNonlinearSolve]] -deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "FiniteDiff", "ForwardDiff", "LinearAlgebra", "MaybeInplace", "PrecompileTools", "Reexport", "SciMLBase", "StaticArraysCore"] -git-tree-sha1 = "8d672bd91dc432fb286b6d4bcf1a5dc417e932a3" +deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "FastClosures", "FiniteDiff", "ForwardDiff", "LinearAlgebra", "MaybeInplace", "PrecompileTools", "Reexport", "SciMLBase", "StaticArraysCore"] +git-tree-sha1 = "470c5f97af31fa35926b45eb01e53a46c8d7d35f" uuid = "727e6d20-b764-4bd8-a329-72de5adea6c7" -version = "1.2.0" +version = "1.3.1" [deps.SimpleNonlinearSolve.extensions] SimpleNonlinearSolvePolyesterForwardDiffExt = "PolyesterForwardDiff" + SimpleNonlinearSolveStaticArraysExt = "StaticArrays" [deps.SimpleNonlinearSolve.weakdeps] PolyesterForwardDiff = "98d1487c-24ca-40b6-b7ab-df2af84e126b" + StaticArrays = "90137ffa-7385-5640-81b9-e52037218182" [[deps.SimpleTraits]] deps = ["InteractiveUtils", "MacroTools"] @@ -1388,17 +1390,19 @@ version = "1.10.0" [[deps.SparseDiffTools]] deps = ["ADTypes", "Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "PackageExtensionCompat", "Random", "Reexport", "SciMLOperators", "Setfield", "SparseArrays", "StaticArrayInterface", "StaticArrays", "Tricks", "UnPack", "VertexSafeGraphs"] -git-tree-sha1 = "c281e11db4eacb36a292a054bac83c5a0aca2a26" +git-tree-sha1 = "3b38ae7a1cbe9b8b1344359599753957644b03d4" uuid = "47a9eef4-7e08-11e9-0b38-333d64bd3804" -version = "2.15.0" +version = "2.16.0" [deps.SparseDiffTools.extensions] SparseDiffToolsEnzymeExt = "Enzyme" + SparseDiffToolsPolyesterForwardDiffExt = "PolyesterForwardDiff" SparseDiffToolsSymbolicsExt = "Symbolics" SparseDiffToolsZygoteExt = "Zygote" [deps.SparseDiffTools.weakdeps] Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" + PolyesterForwardDiff = "98d1487c-24ca-40b6-b7ab-df2af84e126b" Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7" Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" @@ -1437,9 +1441,9 @@ weakdeps = ["OffsetArrays", "StaticArrays"] [[deps.StaticArrays]] deps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore"] -git-tree-sha1 = "4e17a790909b17f7bf1496e3aec138cf01b60b3b" +git-tree-sha1 = "f68dd04d131d9a8a8eb836173ee8f105c360b0c5" uuid = "90137ffa-7385-5640-81b9-e52037218182" -version = "1.9.0" +version = "1.9.1" weakdeps = ["ChainRulesCore", "Statistics"] [deps.StaticArrays.extensions] @@ -1476,9 +1480,9 @@ version = "0.3.4" [[deps.StructArrays]] deps = ["Adapt", "ConstructionBase", "DataAPI", "GPUArraysCore", "StaticArraysCore", "Tables"] -git-tree-sha1 = "0a3db38e4cce3c54fe7a71f831cd7b6194a54213" +git-tree-sha1 = "1b0b1205a56dc288b71b1961d48e351520702e24" uuid = "09ab397b-f2b6-538f-b94a-2f83cf4a842a" -version = "0.6.16" +version = "0.6.17" [[deps.StructTypes]] deps = ["Dates", "UUIDs"] diff --git a/pixi.toml b/pixi.toml index 27342235e..27ff761d0 100644 --- a/pixi.toml +++ b/pixi.toml @@ -29,7 +29,7 @@ install-without-pre-commit = { depends_on = [ install = { depends_on = ["install-without-pre-commit", "install-pre-commit"] } # Instantiate update-registry-julia = "julia --eval='using Pkg; Registry.update()'" -update-manifest-julia = "julia --eval='using Pkg; Pkg.update()'" +update-manifest-julia = "julia --project --eval='using Pkg; Pkg.update()'" instantiate-julia = "julia --project --eval='using Pkg; Pkg.instantiate()'" initialize-julia = { depends_on = [ "update-registry-julia", From 2d7c382476b142c10ae859bc1bca3086f15cc940 Mon Sep 17 00:00:00 2001 From: Huite Date: Thu, 25 Jan 2024 12:46:34 +0100 Subject: [PATCH 05/22] Add update_subgrid_level to BMI functions (#986) Fixes #985 --- build/libribasim/src/libribasim.jl | 6 ++++++ core/src/bmi.jl | 5 +++++ python/ribasim_api/tests/test_bmi.py | 11 +++++++++++ python/ribasim_testmodels/ribasim_testmodels/basic.py | 11 ++++++++++- 4 files changed, 32 insertions(+), 1 deletion(-) diff --git a/build/libribasim/src/libribasim.jl b/build/libribasim/src/libribasim.jl index ccaf3fb54..ee216288f 100644 --- a/build/libribasim/src/libribasim.jl +++ b/build/libribasim/src/libribasim.jl @@ -100,6 +100,12 @@ Base.@ccallable function update_until(time::Cdouble)::Cint end end +Base.@ccallable function update_subgrid_level()::Cint + @try_c begin + Ribasim.update_subgrid_level(model) + end +end + Base.@ccallable function get_current_time(time::Ptr{Cdouble})::Cint @try_c begin t = BMI.get_current_time(model) diff --git a/core/src/bmi.jl b/core/src/bmi.jl index 7f11ee34d..9b9a7993d 100644 --- a/core/src/bmi.jl +++ b/core/src/bmi.jl @@ -633,6 +633,11 @@ function BMI.update_until(model::Model, time)::Model return model end +function update_subgrid_level(model::Model)::Model + update_subgrid_level!(model.integrator) + return model +end + function BMI.get_value_ptr(model::Model, name::AbstractString) if name == "volume" model.integrator.u.storage diff --git a/python/ribasim_api/tests/test_bmi.py b/python/ribasim_api/tests/test_bmi.py index 4318eec81..01342a274 100644 --- a/python/ribasim_api/tests/test_bmi.py +++ b/python/ribasim_api/tests/test_bmi.py @@ -57,6 +57,17 @@ def test_update_until(libribasim, basic, tmp_path): assert actual_time == pytest.approx(expected_time) +def test_update_subgrid_level(libribasim, basic, tmp_path): + basic.write(tmp_path / "ribasim.toml") + config_file = str(tmp_path / "ribasim.toml") + libribasim.initialize(config_file) + libribasim.update_subgrid_level() + level = libribasim.get_value_ptr("subgrid_level") + # The subgrid levels are initialized with NaN. + # After calling update, they should have regular values. + assert np.isfinite(level).all() + + def test_get_var_type(libribasim, basic, tmp_path): basic.write(tmp_path / "ribasim.toml") config_file = str(tmp_path / "ribasim.toml") diff --git a/python/ribasim_testmodels/ribasim_testmodels/basic.py b/python/ribasim_testmodels/ribasim_testmodels/basic.py index 657314b95..8d449d8c2 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/basic.py +++ b/python/ribasim_testmodels/ribasim_testmodels/basic.py @@ -39,7 +39,16 @@ def basic_model() -> ribasim.Model: state = pd.DataFrame( data={"node_id": static["node_id"], "level": 0.04471158417652035} ) - basin = ribasim.Basin(profile=profile, static=static, state=state) + # This is a 1:1 translation. + subgrid = pd.DataFrame( + data={ + "node_id": profile["node_id"], + "subgrid_id": profile["node_id"], + "basin_level": profile["level"], + "subgrid_level": profile["level"], + } + ) + basin = ribasim.Basin(profile=profile, static=static, state=state, subgrid=subgrid) # Setup linear resistance: linear_resistance = ribasim.LinearResistance( From 9763561ea51630a826df5f2fd9dad592e33f721c Mon Sep 17 00:00:00 2001 From: Martijn Visser Date: Thu, 25 Jan 2024 13:42:38 +0100 Subject: [PATCH 06/22] Pin pandas to less noisy 2.1.4 (#988) Addresses part of #984, at least for our dev environment. I'm keeping #984 open to remind us to unpin it when a new pandera is out. This also adds [xugrid](https://github.com/Deltares/xugrid) and netCDF4 to our pixi environment. Not as a ribasim dependency, but will need it to run conversion scripts from #969. --- pixi.lock | 4458 ++++++++++++++++++++++++++++++++++++++++------------- pixi.toml | 6 +- 2 files changed, 3371 insertions(+), 1093 deletions(-) diff --git a/pixi.lock b/pixi.lock index ac270a7a4..b076825ff 100644 --- a/pixi.lock +++ b/pixi.lock @@ -311,15 +311,15 @@ package: timestamp: 1649077760928 - platform: linux-64 name: argcomplete - version: 3.2.1 + version: 3.2.2 category: main manager: conda dependencies: - python >=3.8 - url: https://conda.anaconda.org/conda-forge/noarch/argcomplete-3.2.1-pyhd8ed1ab_0.conda + url: https://conda.anaconda.org/conda-forge/noarch/argcomplete-3.2.2-pyhd8ed1ab_0.conda hash: - md5: 0801250abb3d5b86010e20324f0dde94 - sha256: af221f16a23feea4d91db75b35c5720c9c448814af815fe6d45c5627eb75e897 + md5: 4017741f57d9bbf3cf184ca147859f78 + sha256: 8a1d1f92d40c6686d10ecce290a42560d023ecc02676f54dcfedfc0ede354f52 build: pyhd8ed1ab_0 arch: x86_64 subdir: linux-64 @@ -327,19 +327,19 @@ package: license: Apache-2.0 license_family: Apache noarch: python - 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python >=3.8 + url: https://conda.anaconda.org/conda-forge/noarch/zict-3.0.0-pyhd8ed1ab_0.conda + hash: + md5: cf30c2c15b82aacb07f9c09e28ff2275 + sha256: 3d65c081514569ab3642ba7e6c2a6b4615778b596db6b1c82ee30a2d912539e5 + build: pyhd8ed1ab_0 + arch: x86_64 + subdir: osx-64 + build_number: 0 + license: BSD-3-Clause + license_family: BSD + noarch: python + size: 36325 + timestamp: 1681770298596 +- platform: osx-arm64 + name: zict + version: 3.0.0 + category: main + manager: conda + dependencies: + - python >=3.8 + url: https://conda.anaconda.org/conda-forge/noarch/zict-3.0.0-pyhd8ed1ab_0.conda + hash: + md5: cf30c2c15b82aacb07f9c09e28ff2275 + sha256: 3d65c081514569ab3642ba7e6c2a6b4615778b596db6b1c82ee30a2d912539e5 + build: pyhd8ed1ab_0 + arch: aarch64 + subdir: osx-arm64 + build_number: 0 + license: BSD-3-Clause + license_family: BSD + noarch: python + size: 36325 + timestamp: 1681770298596 +- platform: win-64 + name: zict + version: 3.0.0 + category: main + manager: conda + dependencies: + - python >=3.8 + url: https://conda.anaconda.org/conda-forge/noarch/zict-3.0.0-pyhd8ed1ab_0.conda + hash: + md5: cf30c2c15b82aacb07f9c09e28ff2275 + sha256: 3d65c081514569ab3642ba7e6c2a6b4615778b596db6b1c82ee30a2d912539e5 + build: pyhd8ed1ab_0 + arch: x86_64 + subdir: win-64 + build_number: 0 + license: BSD-3-Clause + license_family: BSD + noarch: python + size: 36325 + timestamp: 1681770298596 - platform: linux-64 name: zipp version: 3.17.0 diff --git a/pixi.toml b/pixi.toml index 27ff761d0..1f1d5183e 100644 --- a/pixi.toml +++ b/pixi.toml @@ -127,12 +127,14 @@ ribasim-model = "julia --project=core -e 'using Ribasim; Ribasim.main(ARGS)'" build = "*" datamodel-code-generator = "0.24.*" geopandas = "*" +hatchling = "*" juliaup = "*" jupyterlab = "*" libgdal-arrow-parquet = "*" matplotlib = "*" mypy = "*" -pandas = "*" +netCDF4 = "*" +pandas = "==2.1.4" # Avoid excessive deprecation warnings from pandera (#984) pandas-stubs = "*" pandera = "*" pip = "*" @@ -158,7 +160,7 @@ types-requests = "*" typing-extensions = ">=4.6" xarray = "*" xmipy = "*" -hatchling = "*" +xugrid = "*" [target.win-64.dependencies] quarto = "*" From 9581d7bd80407128f2fdce56acd4530a5bde7e14 Mon Sep 17 00:00:00 2001 From: Huite Date: Thu, 25 Jan 2024 17:07:32 +0100 Subject: [PATCH 07/22] Not part of bmi/xmi: add the method to python api (#990) Second chance... --- python/ribasim_api/ribasim_api/ribasim_api.py | 3 +++ 1 file changed, 3 insertions(+) diff --git a/python/ribasim_api/ribasim_api/ribasim_api.py b/python/ribasim_api/ribasim_api/ribasim_api.py index 6914deae8..341f1e7c4 100644 --- a/python/ribasim_api/ribasim_api/ribasim_api.py +++ b/python/ribasim_api/ribasim_api/ribasim_api.py @@ -27,3 +27,6 @@ def init_julia(self) -> None: def shutdown_julia(self) -> None: self.lib.shutdown_julia(c_int(0)) + + def update_subgrid_level(self) -> None: + self.lib.update_subgrid_level() From 26c1b7f3cb5e9b2dd2ecb90bf6fd7790b160c248 Mon Sep 17 00:00:00 2001 From: Martijn Visser Date: Fri, 26 Jan 2024 12:42:53 +0100 Subject: [PATCH 08/22] Use flow_rate rather than discharge in TabulatedRatingCurve (#992) A breaking change, but this is more consistent. Fixes #983. --- core/src/bmi.jl | 4 ++-- core/src/solve.jl | 2 +- core/src/utils.jl | 10 +++++----- core/src/validation.jl | 4 ++-- core/test/run_models_test.jl | 4 ++-- docs/core/equations.qmd | 4 ---- docs/core/usage.qmd | 6 +++--- docs/python/examples.ipynb | 8 ++++---- docs/schema/TabulatedRatingCurveStatic.schema.json | 4 ++-- docs/schema/TabulatedRatingCurveTime.schema.json | 4 ++-- python/ribasim/ribasim/models.py | 4 ++-- .../ribasim_testmodels/allocation.py | 6 +++--- python/ribasim_testmodels/ribasim_testmodels/basic.py | 6 +++--- .../ribasim_testmodels/discrete_control.py | 4 ++-- .../ribasim_testmodels/dutch_waterways.py | 4 ++-- .../ribasim_testmodels/ribasim_testmodels/equations.py | 4 ++-- .../ribasim_testmodels/ribasim_testmodels/invalid.py | 6 +++--- .../ribasim_testmodels/pid_control.py | 2 +- .../ribasim_testmodels/ribasim_testmodels/trivial.py | 2 +- ribasim_qgis/core/nodes.py | 4 ++-- 20 files changed, 44 insertions(+), 48 deletions(-) diff --git a/core/src/bmi.jl b/core/src/bmi.jl index 9b9a7993d..24c3b763a 100644 --- a/core/src/bmi.jl +++ b/core/src/bmi.jl @@ -607,9 +607,9 @@ function update_tabulated_rating_curve!(integrator)::Nothing # update the existing LinearInterpolation id = first(group).node_id level = [row.level for row in group] - discharge = [row.discharge for row in group] + flow_rate = [row.flow_rate for row in group] i = searchsortedfirst(node_id, NodeID(id)) - tables[i] = LinearInterpolation(discharge, level; extrapolate = true) + tables[i] = LinearInterpolation(flow_rate, level; extrapolate = true) end return nothing end diff --git a/core/src/solve.jl b/core/src/solve.jl index ab37fd191..f93a76ad5 100644 --- a/core/src/solve.jl +++ b/core/src/solve.jl @@ -121,7 +121,7 @@ end """ struct TabulatedRatingCurve{C} -Rating curve from level to discharge. The rating curve is a lookup table with linear +Rating curve from level to flow rate. The rating curve is a lookup table with linear interpolation in between. Relation can be updated in time, which is done by moving data from the `time` field into the `tables`, which is done in the `update_tabulated_rating_curve` callback. diff --git a/core/src/utils.jl b/core/src/utils.jl index 20ff9f75c..5ca7608b4 100644 --- a/core/src/utils.jl +++ b/core/src/utils.jl @@ -570,14 +570,14 @@ end function qh_interpolation( level::AbstractVector, - discharge::AbstractVector, + flow_rate::AbstractVector, )::Tuple{LinearInterpolation, Bool} - return LinearInterpolation(discharge, level; extrapolate = true), allunique(level) + return LinearInterpolation(flow_rate, level; extrapolate = true), allunique(level) end """ -From a table with columns node_id, discharge (Q) and level (h), -create a LinearInterpolation from level to discharge for a given node_id. +From a table with columns node_id, flow_rate (Q) and level (h), +create a LinearInterpolation from level to flow rate for a given node_id. """ function qh_interpolation( node_id::Int, @@ -585,7 +585,7 @@ function qh_interpolation( )::Tuple{LinearInterpolation, Bool} rowrange = findlastgroup(node_id, table.node_id) @assert !isempty(rowrange) "timeseries starts after model start time" - return qh_interpolation(table.level[rowrange], table.discharge[rowrange]) + return qh_interpolation(table.level[rowrange], table.flow_rate[rowrange]) end """ diff --git a/core/src/validation.jl b/core/src/validation.jl index 922b02fe2..8ff6e59cc 100644 --- a/core/src/validation.jl +++ b/core/src/validation.jl @@ -261,7 +261,7 @@ end node_id::Int active::Union{Missing, Bool} level::Float64 - discharge::Float64 + flow_rate::Float64 control_state::Union{Missing, String} end @@ -269,7 +269,7 @@ end node_id::Int time::DateTime level::Float64 - discharge::Float64 + flow_rate::Float64 end @version TerminalStaticV1 begin diff --git a/core/test/run_models_test.jl b/core/test/run_models_test.jl index 227ec010f..109c20dba 100644 --- a/core/test/run_models_test.jl +++ b/core/test/run_models_test.jl @@ -335,12 +335,12 @@ end See: https://en.wikipedia.org/wiki/Standard_step_method - * The left boundary has a fixed discharge `Q`. + * The left boundary has a fixed flow rate `Q`. * The right boundary has a fixed level `h_right`. * Channel profile is rectangular. # Arguments - - `Q`: discharge entering in the left boundary (m3/s) + - `Q`: flow rate entering in the left boundary (m3/s) - `w`: width (m) - `n`: Manning roughness - `h_right`: water level on the right boundary diff --git a/docs/core/equations.qmd b/docs/core/equations.qmd index 0ab8aeaa5..cc238d8a6 100644 --- a/docs/core/equations.qmd +++ b/docs/core/equations.qmd @@ -260,10 +260,6 @@ discharge. It can be understood as an empirical description of a basin's properties. This can include an outlet, but also the lumped hydraulic behavior of the upstream channels. - -The Tabulated Rating Curve should indicate at which volume no discharge occurs (the dead -storage volume). - :::{.callout-note} Currently, the discharge relies only on the basin's level; it could also use the volume of both connected basins to simulate backwater effects, submersion diff --git a/docs/core/usage.qmd b/docs/core/usage.qmd index e8e2789bd..6c7e3a529 100644 --- a/docs/core/usage.qmd +++ b/docs/core/usage.qmd @@ -393,9 +393,9 @@ node_id | Int | - | sorted control_state | String | - | (optional) sorted per node_id active | Bool | - | (optional, default true) level | Float64 | $m$ | sorted per control_state -discharge | Float64 | $m^3 s^{-1}$ | non-negative +flow_rate | Float64 | $m^3 s^{-1}$ | non-negative -node_id | discharge | level +node_id | flow_rate | level ------- |----------- |------- 2 | 0.0 | -0.105 2 | 0.0 | 0.095 @@ -416,7 +416,7 @@ column | type | unit | restriction node_id | Int | - | sorted time | DateTime | - | sorted per node_id level | Float64 | $m$ | - -discharge | Float64 | $m^3 s^{-1}$ | non-negative +flow_rate | Float64 | $m^3 s^{-1}$ | non-negative # Pump diff --git a/docs/python/examples.ipynb b/docs/python/examples.ipynb index 7b27083d2..13097eada 100644 --- a/docs/python/examples.ipynb +++ b/docs/python/examples.ipynb @@ -158,7 +158,7 @@ " data={\n", " \"node_id\": [4, 4],\n", " \"level\": [0.0, 1.0],\n", - " \"discharge\": [0.0, q1000],\n", + " \"flow_rate\": [0.0, q1000],\n", " }\n", " )\n", ")" @@ -867,7 +867,7 @@ "source": [ "rating_curve = ribasim.TabulatedRatingCurve(\n", " static=pd.DataFrame(\n", - " data={\"node_id\": 2 * [5], \"level\": [2.0, 15.0], \"discharge\": [0.0, 1e-3]}\n", + " data={\"node_id\": 2 * [5], \"level\": [2.0, 15.0], \"flow_rate\": [0.0, 1e-3]}\n", " )\n", ")" ] @@ -1633,7 +1633,7 @@ " data={\n", " \"node_id\": 7,\n", " \"level\": [0.0, 0.5, 1.0],\n", - " \"discharge\": [0.0, 0.0, 2.0],\n", + " \"flow_rate\": [0.0, 0.0, 2.0],\n", " }\n", " )\n", ")" @@ -1941,7 +1941,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.6" + "version": "3.11.7" } }, "nbformat": 4, diff --git a/docs/schema/TabulatedRatingCurveStatic.schema.json b/docs/schema/TabulatedRatingCurveStatic.schema.json index 0e21b91f0..319d37d8c 100644 --- a/docs/schema/TabulatedRatingCurveStatic.schema.json +++ b/docs/schema/TabulatedRatingCurveStatic.schema.json @@ -24,7 +24,7 @@ "format": "double", "type": "number" }, - "discharge": { + "flow_rate": { "format": "double", "type": "number" }, @@ -49,6 +49,6 @@ "required": [ "node_id", "level", - "discharge" + "flow_rate" ] } diff --git a/docs/schema/TabulatedRatingCurveTime.schema.json b/docs/schema/TabulatedRatingCurveTime.schema.json index 447df4100..52a07a442 100644 --- a/docs/schema/TabulatedRatingCurveTime.schema.json +++ b/docs/schema/TabulatedRatingCurveTime.schema.json @@ -17,7 +17,7 @@ "format": "double", "type": "number" }, - "discharge": { + "flow_rate": { "format": "double", "type": "number" }, @@ -32,6 +32,6 @@ "node_id", "time", "level", - "discharge" + "flow_rate" ] } diff --git a/python/ribasim/ribasim/models.py b/python/ribasim/ribasim/models.py index 38de5e958..87605768b 100644 --- a/python/ribasim/ribasim/models.py +++ b/python/ribasim/ribasim/models.py @@ -189,7 +189,7 @@ class TabulatedRatingCurveStatic(BaseModel): node_id: int active: bool | None = None level: float - discharge: float + flow_rate: float control_state: str | None = None remarks: str = Field("", description="a hack for pandera") @@ -198,7 +198,7 @@ class TabulatedRatingCurveTime(BaseModel): node_id: int time: datetime level: float - discharge: float + flow_rate: float remarks: str = Field("", description="a hack for pandera") diff --git a/python/ribasim_testmodels/ribasim_testmodels/allocation.py b/python/ribasim_testmodels/ribasim_testmodels/allocation.py index 4a218bd98..3be17b397 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/allocation.py +++ b/python/ribasim_testmodels/ribasim_testmodels/allocation.py @@ -503,7 +503,7 @@ def looped_subnetwork_model(): data={ "node_id": [13, 13, 14, 14, 19, 19], "level": 3 * [0.0, 1.0], - "discharge": 3 * [0.0, 2.0], + "flow_rate": 3 * [0.0, 2.0], } ) ) @@ -784,7 +784,7 @@ def fractional_flow_subnetwork_model(): data={ "node_id": [3, 3], "level": [0.0, 1.0], - "discharge": [0.0, 1e-4], + "flow_rate": [0.0, 1e-4], } ) ) @@ -986,7 +986,7 @@ def allocation_example_model(): data={ "node_id": 7, "level": [0.0, 0.5, 1.0], - "discharge": [0.0, 0.0, 2.0], + "flow_rate": [0.0, 0.0, 2.0], } ) ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/basic.py b/python/ribasim_testmodels/ribasim_testmodels/basic.py index 8d449d8c2..179d03a65 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/basic.py +++ b/python/ribasim_testmodels/ribasim_testmodels/basic.py @@ -79,7 +79,7 @@ def basic_model() -> ribasim.Model: data={ "node_id": [4, 4], "level": [0.0, 1.0], - "discharge": [0.0, q1000], + "flow_rate": [0.0, q1000], } ) ) @@ -329,7 +329,7 @@ def tabulated_rating_curve_model() -> ribasim.Model: data={ "node_id": [2, 2], "level": [0.0, 1.0], - "discharge": [0.0, q1000], + "flow_rate": [0.0, q1000], } ), time=pd.DataFrame( @@ -345,7 +345,7 @@ def tabulated_rating_curve_model() -> ribasim.Model: pd.Timestamp("2020-03"), ], "level": [0.0, 1.0, 0.0, 1.1, 0.0, 1.2], - "discharge": [0.0, q1000, 0.0, q1000, 0.0, q1000], + "flow_rate": [0.0, q1000, 0.0, q1000, 0.0, q1000], } ), ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/discrete_control.py b/python/ribasim_testmodels/ribasim_testmodels/discrete_control.py index e82b606a0..a1bb7f88c 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/discrete_control.py +++ b/python/ribasim_testmodels/ribasim_testmodels/discrete_control.py @@ -524,7 +524,7 @@ def tabulated_rating_curve_control_model() -> ribasim.Model: data={ "node_id": [2, 2, 2, 2], "level": [0.0, 1.2, 0.0, 1.0], - "discharge": [0.0, q100, 0.0, q100], + "flow_rate": [0.0, q100, 0.0, q100], "control_state": ["low", "low", "high", "high"], } ), @@ -665,7 +665,7 @@ def level_setpoint_with_minmax_model(): # Setup the rating curve rating_curve = ribasim.TabulatedRatingCurve( static=pd.DataFrame( - data={"node_id": 2 * [5], "level": [2.0, 15.0], "discharge": [0.0, 1e-3]} + data={"node_id": 2 * [5], "level": [2.0, 15.0], "flow_rate": [0.0, 1e-3]} ) ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/dutch_waterways.py b/python/ribasim_testmodels/ribasim_testmodels/dutch_waterways.py index e82e358f1..4920369f5 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/dutch_waterways.py +++ b/python/ribasim_testmodels/ribasim_testmodels/dutch_waterways.py @@ -105,8 +105,8 @@ def dutch_waterways_model(): 7.46, 4.45, 4.46, - ], # The level and discharge for "pump_low", "pump_high" are irrelevant - "discharge": [0.0, 0.0] + ], # The level and flow rate for "pump_low", "pump_high" are irrelevant + "flow_rate": [0.0, 0.0] + 2 * [418, 420.15], # since the rating curve is not active here } ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/equations.py b/python/ribasim_testmodels/ribasim_testmodels/equations.py index bbb678f11..87e9330a4 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/equations.py +++ b/python/ribasim_testmodels/ribasim_testmodels/equations.py @@ -175,14 +175,14 @@ def rating_curve_model(): level_min = 1.0 node_id = np.full(n_datapoints, 2) level = np.linspace(0, 12, 100) - discharge = np.square(level - level_min) / (60 * 60 * 24) + flow_rate = np.square(level - level_min) / (60 * 60 * 24) rating_curve = ribasim.TabulatedRatingCurve( static=pd.DataFrame( data={ "node_id": node_id, "level": level, - "discharge": discharge, + "flow_rate": flow_rate, } ) ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/invalid.py b/python/ribasim_testmodels/ribasim_testmodels/invalid.py index 7301f7f2a..c77bde12b 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/invalid.py +++ b/python/ribasim_testmodels/ribasim_testmodels/invalid.py @@ -67,7 +67,7 @@ def invalid_qh_model(): rating_curve_static = pd.DataFrame( # Invalid: levels must not be repeated - data={"node_id": [1, 1], "level": [0.0, 0.0], "discharge": [1.0, 2.0]} + data={"node_id": [1, 1], "level": [0.0, 0.0], "flow_rate": [1.0, 2.0]} ) rating_curve_time = pd.DataFrame( data={ @@ -78,7 +78,7 @@ def invalid_qh_model(): ], # Invalid: levels must not be repeated "level": [0.0, 0.0], - "discharge": [1.0, 2.0], + "flow_rate": [1.0, 2.0], } ) @@ -195,7 +195,7 @@ def invalid_fractional_flow_model(): # Setup the tabulated rating curve: rating_curve = ribasim.TabulatedRatingCurve( static=pd.DataFrame( - data={"node_id": [7, 7], "level": [0.0, 1.0], "discharge": [0.0, 50.0]} + data={"node_id": [7, 7], "level": [0.0, 1.0], "flow_rate": [0.0, 50.0]} ) ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/pid_control.py b/python/ribasim_testmodels/ribasim_testmodels/pid_control.py index 865067e42..095f506dd 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/pid_control.py +++ b/python/ribasim_testmodels/ribasim_testmodels/pid_control.py @@ -256,7 +256,7 @@ def discrete_control_of_pid_control_model(): data={ "node_id": [4, 4], "level": [0.0, 1.0], - "discharge": [0.0, q1000], + "flow_rate": [0.0, q1000], } ) ) diff --git a/python/ribasim_testmodels/ribasim_testmodels/trivial.py b/python/ribasim_testmodels/ribasim_testmodels/trivial.py index 99b5067cf..4cca5a8a4 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/trivial.py +++ b/python/ribasim_testmodels/ribasim_testmodels/trivial.py @@ -101,7 +101,7 @@ def trivial_model() -> ribasim.Model: data={ "node_id": [0, 0], "level": [0.0, 1.0], - "discharge": [0.0, q1000], + "flow_rate": [0.0, q1000], } ) ) diff --git a/ribasim_qgis/core/nodes.py b/ribasim_qgis/core/nodes.py index 20c63c2ed..84f240139 100644 --- a/ribasim_qgis/core/nodes.py +++ b/ribasim_qgis/core/nodes.py @@ -446,7 +446,7 @@ def attributes(cls) -> list[QgsField]: QgsField("node_id", QVariant.Int), QgsField("active", QVariant.Bool), QgsField("level", QVariant.Double), - QgsField("discharge", QVariant.Double), + QgsField("flow_rate", QVariant.Double), QgsField("control_state", QVariant.String), ] @@ -466,7 +466,7 @@ def attributes(cls) -> list[QgsField]: QgsField("time", QVariant.DateTime), QgsField("node_id", QVariant.Int), QgsField("level", QVariant.Double), - QgsField("discharge", QVariant.Double), + QgsField("flow_rate", QVariant.Double), ] From f4e90adbf8e345d72f1b9fef8cb4f567ee6a7f29 Mon Sep 17 00:00:00 2001 From: Huite Date: Fri, 26 Jan 2024 14:41:49 +0100 Subject: [PATCH 09/22] Add two_basin model to ribasim-testsmodels (#994) This model is only defined in the imod_coupler tests, which means it's not automatically updated when someone makes a breaking change. Then, the imod_coupler tests will fail. I'll update the fixture in imod_coupler after this is merged. --- .../ribasim_testmodels/__init__.py | 2 + .../ribasim_testmodels/two_basin.py | 126 ++++++++++++++++++ 2 files changed, 128 insertions(+) create mode 100644 python/ribasim_testmodels/ribasim_testmodels/two_basin.py diff --git a/python/ribasim_testmodels/ribasim_testmodels/__init__.py b/python/ribasim_testmodels/ribasim_testmodels/__init__.py index 0ddc0cfb1..f8c1f7d35 100644 --- a/python/ribasim_testmodels/ribasim_testmodels/__init__.py +++ b/python/ribasim_testmodels/ribasim_testmodels/__init__.py @@ -49,6 +49,7 @@ ) from ribasim_testmodels.time import flow_boundary_time_model from ribasim_testmodels.trivial import trivial_model +from ribasim_testmodels.two_basin import two_basin_model __all__ = [ "allocation_example_model", @@ -83,6 +84,7 @@ "minimal_subnetwork_model", "fractional_flow_subnetwork_model", "looped_subnetwork_model", + "two_basin_model", ] # provide a mapping from model name to its constructor, so we can iterate over all models diff --git a/python/ribasim_testmodels/ribasim_testmodels/two_basin.py b/python/ribasim_testmodels/ribasim_testmodels/two_basin.py new file mode 100644 index 000000000..5618ea7b1 --- /dev/null +++ b/python/ribasim_testmodels/ribasim_testmodels/two_basin.py @@ -0,0 +1,126 @@ +import geopandas as gpd +import numpy as np +import pandas as pd +import ribasim + + +def two_basin_model() -> ribasim.Model: + """ + Create a model of two basins. + + The basins are not connected; the model is mostly designed to test in + combination with a groundwater model. + + The left basin receives water. In case of a coupled run, the water + infiltrates in the left basin, and exfiltrates in the right basin. + The right basin fills up and discharges over the rating curve. + """ + flow_boundary = ribasim.FlowBoundary( + static=pd.DataFrame( + data={ + "node_id": [1], + "flow_rate": [1e-2], + } + ) + ) + + xy = np.array( + [ + (0, 0.0), # FlowBoundary + (250.0, 0.0), # Basin 1 + (750.0, 0.0), # Basin 2 + (1000.00, 0.0), # TabulatedRatingCurve + (1100.00, 0.0), # Terminal + ] + ) + # Rectangular profile + profile = pd.DataFrame( + data={ + "node_id": [2, 2, 3, 3], + "area": [400.0, 400.0, 400.0, 400.0], + "level": [0.0, 1.0, 0.0, 1.0], + } + ) + state = pd.DataFrame(data={"node_id": [2, 3], "level": [0.01, 0.01]}) + static = pd.DataFrame( + data={ + "node_id": [2, 3], + "drainage": [0.0, 0.0], + "potential_evaporation": [0.0, 0.0], + "infiltration": [0.0, 0.0], + "precipitation": [0.0, 0.0], + "urban_runoff": [0.0, 0.0], + } + ) + subgrid = pd.DataFrame( + data={ + "node_id": [2, 2, 3, 3], + "subgrid_id": [1, 1, 2, 2], + "basin_level": [0.0, 1.0, 0.0, 1.0], + "subgrid_level": [0.0, 1.0, 0.0, 1.0], + "meta_x": [250.0, 250.0, 750.0, 750.0], + "meta_y": [0.0, 0.0, 0.0, 0.0], + } + ) + basin = ribasim.Basin(profile=profile, state=state, static=static, subgrid=subgrid) + + rating_curve = ribasim.TabulatedRatingCurve( + static=pd.DataFrame( + data={ + "node_id": [4, 4], + "level": [0.0, 1.0], + "flow_rate": [0.0, 0.01], + } + ) + ) + + terminal = ribasim.Terminal( + static=pd.DataFrame( + data={ + "node_id": [5], + } + ) + ) + node_id, node_type = ribasim.Node.node_ids_and_types( + basin, + rating_curve, + flow_boundary, + terminal, + ) + node_xy = gpd.points_from_xy(x=xy[:, 0], y=xy[:, 1]) + + # Make sure the feature id starts at 1: explicitly give an index. + node = ribasim.Node( + df=gpd.GeoDataFrame( + data={"type": node_type}, + index=pd.Index(node_id, name="fid"), + geometry=node_xy, + crs="EPSG:28992", + ) + ) + + from_id = np.array([1, 3, 4], dtype=np.int64) + to_id = np.array([2, 4, 5], dtype=np.int64) + lines = node.geometry_from_connectivity([1, 3, 4], [2, 4, 5]) + edge = ribasim.Edge( + df=gpd.GeoDataFrame( + data={ + "from_node_id": from_id, + "to_node_id": to_id, + "edge_type": len(from_id) * ["flow"], + }, + geometry=lines, + crs="EPSG:28992", + ) + ) + + ribasim_model = ribasim.Model( + network=ribasim.Network(node=node, edge=edge), + basin=basin, + flow_boundary=flow_boundary, + tabulated_rating_curve=rating_curve, + terminal=terminal, + starttime="2020-01-01 00:00:00", + endtime="2030-01-01 00:00:00", + ) + return ribasim_model From 8a9a9285d17739c90d22b52fab266b64e8420d29 Mon Sep 17 00:00:00 2001 From: Martijn Visser Date: Fri, 26 Jan 2024 16:28:13 +0100 Subject: [PATCH 10/22] Always write fid index of Node and Edge tables (#995) We are using `GeoDataFrame.to_file` to write these tables to GeoPackage. By default GeoPandas only writes the index if it has a name. We don't want to rely on users naming indices, so this sets the name and ensure it is written. I ran into this since I noticed the `model.network.edge.df.index` (by default 0-based) did not correspond to the 1-based fid column that GeoPandas writes. https://geopandas.org/en/stable/docs/reference/api/geopandas.GeoDataFrame.to_file.html --- core/test/validation_test.jl | 6 +++--- python/ribasim/ribasim/input_base.py | 3 ++- python/ribasim/tests/test_model.py | 27 +++++++++++++++++++++++++-- 3 files changed, 30 insertions(+), 6 deletions(-) diff --git a/core/test/validation_test.jl b/core/test/validation_test.jl index 1d6dd4ce4..97b782b6d 100644 --- a/core/test/validation_test.jl +++ b/core/test/validation_test.jl @@ -250,7 +250,7 @@ end @test logger.logs[3].kwargs[:control_state] == "" @test logger.logs[4].level == Error @test logger.logs[4].message == "Cannot connect a basin to a fractional_flow." - @test logger.logs[4].kwargs[:edge_id] == 7 + @test logger.logs[4].kwargs[:edge_id] == 6 @test logger.logs[4].kwargs[:id_src] == NodeID(2) @test logger.logs[4].kwargs[:id_dst] == NodeID(8) end @@ -358,10 +358,10 @@ end @test length(logger.logs) == 2 @test logger.logs[1].level == Error @test logger.logs[1].message == - "Invalid edge type 'foo' for edge #1 from node #1 to node #2." + "Invalid edge type 'foo' for edge #0 from node #1 to node #2." @test logger.logs[2].level == Error @test logger.logs[2].message == - "Invalid edge type 'bar' for edge #2 from node #2 to node #3." + "Invalid edge type 'bar' for edge #1 from node #2 to node #3." end @testitem "Subgrid validation" begin diff --git a/python/ribasim/ribasim/input_base.py b/python/ribasim/ribasim/input_base.py index 17b066d01..8ba892e55 100644 --- a/python/ribasim/ribasim/input_base.py +++ b/python/ribasim/ribasim/input_base.py @@ -374,8 +374,9 @@ def _write_table(self, path: FilePath) -> None: gdf = gpd.GeoDataFrame(data=self.df) gdf = gdf.set_geometry("geometry") + gdf.index.name = "fid" - gdf.to_file(path, layer=self.tablename(), driver="GPKG") + gdf.to_file(path, layer=self.tablename(), driver="GPKG", index=True) def sort(self): self.df.sort_index(inplace=True) diff --git a/python/ribasim/tests/test_model.py b/python/ribasim/tests/test_model.py index 23da78e53..c59582d9e 100644 --- a/python/ribasim/tests/test_model.py +++ b/python/ribasim/tests/test_model.py @@ -136,10 +136,33 @@ def test_plot(discrete_control_of_pid_control): def test_write_adds_fid_in_tables(basic, tmp_path): model_orig = basic + # for node an explicit index was provided + nrow = len(model_orig.network.node.df) + assert model_orig.network.node.df.index.name == "fid" + assert model_orig.network.node.df.index.equals( + pd.RangeIndex(start=1, stop=nrow + 1) + ) + # for edge no index was provided, but it still needs to write it to file + nrow = len(model_orig.network.edge.df) + assert model_orig.network.edge.df.index.name is None + assert model_orig.network.edge.df.index.equals(pd.RangeIndex(start=0, stop=nrow)) + model_orig.write(tmp_path / "basic/ribasim.toml") with connect(tmp_path / "basic/database.gpkg") as connection: query = f"select * from {esc_id('Basin / profile')}" - df = pd.read_sql_query(query, connection, parse_dates=["time"]) + df = pd.read_sql_query(query, connection) assert "fid" in df.columns - fids = df.get("fid") + fids = df["fid"] assert fids.equals(pd.Series(range(1, len(fids) + 1))) + + query = "select fid from Node" + df = pd.read_sql_query(query, connection) + assert "fid" in df.columns + fids = df["fid"] + assert fids.equals(pd.Series(range(1, len(fids) + 1))) + + query = "select fid from Edge" + df = pd.read_sql_query(query, connection) + assert "fid" in df.columns + fids = df["fid"] + assert fids.equals(pd.Series(range(0, len(fids)))) From c7762fde2cabc0e6f57c070ff7625848ac59958a Mon Sep 17 00:00:00 2001 From: hofer_jn Date: Fri, 26 Jan 2024 16:30:42 +0100 Subject: [PATCH 11/22] TeamCity change in 'Ribasim / Windows' project: build features of 'Build ribasim_cli' build configuration were updated --- .../buildTypes/Ribasim_Windows_BuildRibasimCli.xml | 6 ------ 1 file changed, 6 deletions(-) diff --git a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml index 53a99c7db..42403143f 100644 --- a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml +++ b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml @@ -78,12 +78,6 @@ pixi run build-ribasim-cli]]> - - - - - - From 2acf180588d9a749216b698561862dfc07aa7cfd Mon Sep 17 00:00:00 2001 From: hofer_jn Date: Fri, 26 Jan 2024 16:54:40 +0100 Subject: [PATCH 12/22] TeamCity change in 'Ribasim' project: snapshot dependency was added in 'Make GitHub Release' build configuration --- .../buildTypes/Ribasim_Ribasim_MakeGitHubRelease.xml | 11 +++++------ 1 file changed, 5 insertions(+), 6 deletions(-) diff --git a/.teamcity/Ribasim/buildTypes/Ribasim_Ribasim_MakeGitHubRelease.xml b/.teamcity/Ribasim/buildTypes/Ribasim_Ribasim_MakeGitHubRelease.xml index e9b85c898..9a781d1b3 100644 --- a/.teamcity/Ribasim/buildTypes/Ribasim_Ribasim_MakeGitHubRelease.xml +++ b/.teamcity/Ribasim/buildTypes/Ribasim_Ribasim_MakeGitHubRelease.xml @@ -105,37 +105,36 @@ fi]]>