From d67f2166b18f58d00ce5551d8d5568a5869288d2 Mon Sep 17 00:00:00 2001 From: gaelforget Date: Mon, 19 Aug 2024 11:53:18 -0400 Subject: [PATCH 1/4] try adding argopy example back in docs build --- docs/Project.toml | 2 + docs/make.jl | 24 +- examples/Argo_argopy.jl | 1610 ++++++++++++++++++++++++++++----------- 3 files changed, 1199 insertions(+), 437 deletions(-) diff --git a/docs/Project.toml b/docs/Project.toml index c125ef8..374c16d 100644 --- a/docs/Project.toml +++ b/docs/Project.toml @@ -1,7 +1,9 @@ [deps] Climatology = "9e9a4d37-2d2e-41e3-8b85-f7978328d9c7" +Conda = "8f4d0f93-b110-5947-807f-2305c1781a2d" Dataverse = "9c0b9be8-e31e-490f-90fe-77697562404d" Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4" MITgcm = "dce5fa8e-68ce-4431-a242-9469c69627a0" NCDatasets = "85f8d34a-cbdd-5861-8df4-14fed0d494ab" PlutoSliderServer = "2fc8631c-6f24-4c5b-bca7-cbb509c42db4" +PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0" diff --git a/docs/make.jl b/docs/make.jl index f27cef7..26580fe 100644 --- a/docs/make.jl +++ b/docs/make.jl @@ -1,4 +1,5 @@ using Documenter, ArgoData, PlutoSliderServer +import Pkg, PyCall, Conda using Climatology, MITgcm ENV["DATADEPS_ALWAYS_ACCEPT"]=true @@ -6,17 +7,19 @@ pth=Climatology.MITPROFclim_download() println(pth) #python dependencies -if false -import Pkg, PyCall, Conda - -tmpfile=joinpath(tempdir(),"pythonpath.txt") -run(pipeline(`which python`,tmpfile)) #external python path -ENV["PYTHON"]=readline(tmpfile) -#ENV["PYTHON"]="" -Pkg.build("PyCall") -Conda.add("argopy") -argopy=PyCall.pyimport("argopy") +if Sys.ARCH!==:aarch64 + method="external" + if method=="external" + tmpfile=joinpath(tempdir(),"pythonpath.txt") + run(pipeline(`which python`,tmpfile)) #external python path + ENV["PYTHON"]=readline(tmpfile) + else + ENV["PYTHON"]="" + end + Pkg.build("PyCall") + ArgoData.conda(:argopy) + argopy=ArgoData.pyimport(:argopy) end #make docs @@ -41,6 +44,7 @@ mv("Argo_float_files.csv",joinpath(@__DIR__,"build", "Argo_float_files.csv")) #run notebooks lst=("ArgoToMITprof.jl",) +Sys.ARCH!==:aarch64 ? lst=(lst...,"Argo_argopy.jl") : nothing for i in lst fil_in=joinpath(@__DIR__,"..", "examples",i) fil_out=joinpath(@__DIR__,"build", i[1:end-2]*"html") diff --git a/examples/Argo_argopy.jl b/examples/Argo_argopy.jl index 73b83cb..02e33e4 100644 --- a/examples/Argo_argopy.jl +++ b/examples/Argo_argopy.jl @@ -1,18 +1,18 @@ ### A Pluto.jl notebook ### -# v0.19.16 +# v0.19.46 using Markdown using InteractiveUtils # ╔═╡ 8073dbb4-7292-11ed-1c5c-2d272632f926 begin - using PlutoUI, CairoMakie, PyCall, Pkg + using PlutoUI, CairoMakie, PyCall, Pkg, ArgoData end # ╔═╡ 0877b3e0-86c0-4143-848b-ecf87f4741f3 md"""# `argopy` via `Julia` -[argopy](https://img.shields.io/readthedocs/argopy?logo=readthedocs) is a python library to access, manipulate, and visualize [Argo data](https://argopy.readthedocs.io/en/latest/what_is_argo.html#what-is-argo). +[argopy]( https://github.com/euroargodev/argopy#readme) is a python library to access, manipulate, and visualize [Argo data](https://argopy.readthedocs.io/en/latest/what_is_argo.html#what-is-argo). This notebook shows how to (1) install `argopy` into `Julia` via [Conda.jl](https://github.com/JuliaPy/Conda.jl) and then (2) use `argopy` via [PyCall.jl](https://github.com/JuliaPy/PyCall.jl). """ @@ -86,7 +86,7 @@ md"""## Software Packages""" begin ENV["PYTHON"]="" Pkg.build("PyCall") - argopy=PyCall.pyimport("argopy") + argopy=ArgoData.pyimport(:argopy) end # ╔═╡ 68fc22ed-c8a0-498a-aca7-fc930b430fc8 @@ -134,47 +134,72 @@ argopy=PyCall.pyimport("argopy") # ╔═╡ 00000000-0000-0000-0000-000000000001 PLUTO_PROJECT_TOML_CONTENTS = """ [deps] +ArgoData = "9eb831cf-c491-48dc-bed4-6aca718df73c" CairoMakie = "13f3f980-e62b-5c42-98c6-ff1f3baf88f0" Pkg = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f" PlutoUI = "7f904dfe-b85e-4ff6-b463-dae2292396a8" PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0" [compat] -CairoMakie = "~0.9.4" PlutoUI = "~0.7.49" -PyCall = "~1.94.1" """ # ╔═╡ 00000000-0000-0000-0000-000000000002 PLUTO_MANIFEST_TOML_CONTENTS = """ # This file is machine-generated - editing it directly is not advised -julia_version = "1.8.1" +julia_version = "1.10.4" manifest_format = "2.0" -project_hash = "2059b39b481c98c09a2c28a75693399eb8eabc60" +project_hash = "4ab6491ec893c5679607d5e1a15c909d8bb10d7a" [[deps.AbstractFFTs]] -deps = ["ChainRulesCore", "LinearAlgebra"] -git-tree-sha1 = "69f7020bd72f069c219b5e8c236c1fa90d2cb409" +deps = ["LinearAlgebra"] +git-tree-sha1 = "d92ad398961a3ed262d8bf04a1a2b8340f915fef" uuid = "621f4979-c628-5d54-868e-fcf4e3e8185c" -version = "1.2.1" +version = "1.5.0" +weakdeps = ["ChainRulesCore", "Test"] + + [deps.AbstractFFTs.extensions] + AbstractFFTsChainRulesCoreExt = "ChainRulesCore" + AbstractFFTsTestExt = "Test" [[deps.AbstractPlutoDingetjes]] deps = ["Pkg"] -git-tree-sha1 = "8eaf9f1b4921132a4cff3f36a1d9ba923b14a481" +git-tree-sha1 = "6e1d2a35f2f90a4bc7c2ed98079b2ba09c35b83a" uuid = "6e696c72-6542-2067-7265-42206c756150" -version = "1.1.4" +version = "1.3.2" [[deps.AbstractTrees]] -git-tree-sha1 = "52b3b436f8f73133d7bc3a6c71ee7ed6ab2ab754" +git-tree-sha1 = "2d9c9a55f9c93e8887ad391fbae72f8ef55e1177" uuid = "1520ce14-60c1-5f80-bbc7-55ef81b5835c" -version = "0.4.3" +version = "0.4.5" + +[[deps.AccurateArithmetic]] +deps = ["LinearAlgebra", "Random", "VectorizationBase"] +git-tree-sha1 = "07af26e8d08c211ef85918f3e25d4c0990d20d70" +uuid = "22286c92-06ac-501d-9306-4abd417d9753" +version = "0.3.8" [[deps.Adapt]] -deps = ["LinearAlgebra"] -git-tree-sha1 = "195c5505521008abea5aee4f96930717958eac6f" +deps = ["LinearAlgebra", "Requires"] +git-tree-sha1 = "6a55b747d1812e699320963ffde36f1ebdda4099" uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" -version = "3.4.0" +version = "4.0.4" +weakdeps = ["StaticArrays"] + + [deps.Adapt.extensions] + AdaptStaticArraysExt = "StaticArrays" + +[[deps.AdaptivePredicates]] +git-tree-sha1 = "7d5da5dd472490d048b081ca1bda4a7821b06456" +uuid = "35492f91-a3bd-45ad-95db-fcad7dcfedb7" +version = "1.1.1" + +[[deps.AliasTables]] +deps = ["PtrArrays", "Random"] +git-tree-sha1 = "9876e1e164b144ca45e9e3198d0b689cadfed9ff" +uuid = "66dad0bd-aa9a-41b7-9441-69ab47430ed8" +version = "1.1.3" [[deps.Animations]] deps = ["Colors"] @@ -186,76 +211,194 @@ version = "0.4.1" uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f" version = "1.1.1" +[[deps.ArgoData]] +deps = ["Bootstrap", "CSV", "Climatology", "DataFrames", "Dates", "Downloads", "FTPClient", "Glob", "Interpolations", "JLD2", "MeshArrays", "NCDatasets", "OrderedCollections", "Pkg", "Printf", "Statistics", "YAML"] +git-tree-sha1 = "c379947d1d3c6204126d8d35c8dc54ce0827e558" +uuid = "9eb831cf-c491-48dc-bed4-6aca718df73c" +version = "0.1.20" +weakdeps = ["Conda", "Makie", "PyCall"] + + [deps.ArgoData.extensions] + ArgoDataCondaExt = ["Conda"] + ArgoDataMakieExt = ["Makie"] + ArgoDataPyCallExt = ["PyCall"] + +[[deps.ArrayInterface]] +deps = ["Adapt", "LinearAlgebra"] +git-tree-sha1 = "f54c23a5d304fb87110de62bace7777d59088c34" +uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" +version = "7.15.0" + + [deps.ArrayInterface.extensions] + ArrayInterfaceBandedMatricesExt = "BandedMatrices" + ArrayInterfaceBlockBandedMatricesExt = "BlockBandedMatrices" + ArrayInterfaceCUDAExt = "CUDA" + ArrayInterfaceCUDSSExt = "CUDSS" + ArrayInterfaceChainRulesExt = "ChainRules" + ArrayInterfaceGPUArraysCoreExt = "GPUArraysCore" + ArrayInterfaceReverseDiffExt = "ReverseDiff" + ArrayInterfaceSparseArraysExt = "SparseArrays" + ArrayInterfaceStaticArraysCoreExt = "StaticArraysCore" + ArrayInterfaceTrackerExt = "Tracker" + + [deps.ArrayInterface.weakdeps] + BandedMatrices = "aae01518-5342-5314-be14-df237901396f" + BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0" + CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" + CUDSS = "45b445bb-4962-46a0-9369-b4df9d0f772e" + ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2" + GPUArraysCore = "46192b85-c4d5-4398-a991-12ede77f4527" + ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" + StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c" + Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" + [[deps.Artifacts]] uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33" [[deps.Automa]] -deps = ["Printf", "ScanByte", "TranscodingStreams"] -git-tree-sha1 = "d50976f217489ce799e366d9561d56a98a30d7fe" +deps = ["PrecompileTools", "TranscodingStreams"] +git-tree-sha1 = "014bc22d6c400a7703c0f5dc1fdc302440cf88be" uuid = "67c07d97-cdcb-5c2c-af73-a7f9c32a568b" -version = "0.8.2" +version = "1.0.4" [[deps.AxisAlgorithms]] deps = ["LinearAlgebra", "Random", "SparseArrays", "WoodburyMatrices"] -git-tree-sha1 = "66771c8d21c8ff5e3a93379480a2307ac36863f7" +git-tree-sha1 = "01b8ccb13d68535d73d2b0c23e39bd23155fb712" uuid = "13072b0f-2c55-5437-9ae7-d433b7a33950" -version = "1.0.1" +version = "1.1.0" [[deps.AxisArrays]] deps = ["Dates", "IntervalSets", "IterTools", "RangeArrays"] -git-tree-sha1 = "1dd4d9f5beebac0c03446918741b1a03dc5e5788" +git-tree-sha1 = "16351be62963a67ac4083f748fdb3cca58bfd52f" uuid = "39de3d68-74b9-583c-8d2d-e117c070f3a9" -version = "0.4.6" +version = "0.4.7" [[deps.Base64]] uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f" +[[deps.BitFlags]] +git-tree-sha1 = 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"FilePathsBase", "InlineStrings", "Mmap", "Parsers", "PooledArrays", "PrecompileTools", "SentinelArrays", "Tables", "Unicode", "WeakRefStrings", "WorkerUtilities"] +git-tree-sha1 = "6c834533dc1fabd820c1db03c839bf97e45a3fab" +uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b" +version = "0.10.14" [[deps.Cairo]] deps = ["Cairo_jll", "Colors", "Glib_jll", "Graphics", "Libdl", "Pango_jll"] -git-tree-sha1 = "d0b3f8b4ad16cb0a2988c6788646a5e6a17b6b1b" +git-tree-sha1 = "7b6ad8c35f4bc3bca8eb78127c8b99719506a5fb" uuid = "159f3aea-2a34-519c-b102-8c37f9878175" -version = "1.0.5" +version = "1.1.0" [[deps.CairoMakie]] -deps = ["Base64", "Cairo", "Colors", "FFTW", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "SHA", "SnoopPrecompile"] -git-tree-sha1 = "5e2c8d04a4b98f73da6d314f673c8b7e7db2d76d" +deps = ["CRC32c", "Cairo", "Cairo_jll", "Colors", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "PrecompileTools"] +git-tree-sha1 = 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"MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "OpenSSL_jll", "TOML", "Zlib_jll", "libaec_jll"] +git-tree-sha1 = "38c8874692d48d5440d5752d6c74b0c6b0b60739" +uuid = "0234f1f7-429e-5d53-9886-15a909be8d59" +version = "1.14.2+1" + +[[deps.HTTP]] +deps = ["Base64", "CodecZlib", "ConcurrentUtilities", "Dates", "ExceptionUnwrapping", "Logging", "LoggingExtras", "MbedTLS", "NetworkOptions", "OpenSSL", "Random", "SimpleBufferStream", "Sockets", "URIs", "UUIDs"] +git-tree-sha1 = "d1d712be3164d61d1fb98e7ce9bcbc6cc06b45ed" +uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3" +version = "1.10.8" + [[deps.HarfBuzz_jll]] deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg"] git-tree-sha1 = "129acf094d168394e80ee1dc4bc06ec835e510a3" uuid = "2e76f6c2-a576-52d4-95c1-20adfe4de566" version = "2.8.1+1" +[[deps.HostCPUFeatures]] +deps = ["BitTwiddlingConvenienceFunctions", "IfElse", "Libdl", "Static"] +git-tree-sha1 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RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" [[deps.IntervalSets]] -deps = ["Dates", "Random", "Statistics"] -git-tree-sha1 = "16c0cc91853084cb5f58a78bd209513900206ce6" +git-tree-sha1 = "dba9ddf07f77f60450fe5d2e2beb9854d9a49bd0" uuid = "8197267c-284f-5f27-9208-e0e47529a953" -version = "0.7.4" +version = "0.7.10" -[[deps.InverseFunctions]] -deps = ["Test"] -git-tree-sha1 = "49510dfcb407e572524ba94aeae2fced1f3feb0f" -uuid = "3587e190-3f89-42d0-90ee-14403ec27112" -version = "0.1.8" + [deps.IntervalSets.extensions] + IntervalSetsRandomExt = "Random" + IntervalSetsRecipesBaseExt = "RecipesBase" + IntervalSetsStatisticsExt = "Statistics" + + [deps.IntervalSets.weakdeps] + Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" + RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" + Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" + +[[deps.InvertedIndices]] +git-tree-sha1 = "0dc7b50b8d436461be01300fd8cd45aa0274b038" +uuid = "41ab1584-1d38-5bbf-9106-f11c6c58b48f" +version = "1.3.0" 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version = "1.2.0" [[deps.Observables]] -git-tree-sha1 = "6862738f9796b3edc1c09d0890afce4eca9e7e93" +git-tree-sha1 = "7438a59546cf62428fc9d1bc94729146d37a7225" uuid = "510215fc-4207-5dde-b226-833fc4488ee2" -version = "0.5.4" +version = "0.5.5" [[deps.OffsetArrays]] -deps = ["Adapt"] -git-tree-sha1 = "f71d8950b724e9ff6110fc948dff5a329f901d64" +git-tree-sha1 = "1a27764e945a152f7ca7efa04de513d473e9542e" uuid = "6fe1bfb0-de20-5000-8ca7-80f57d26f881" -version = "1.12.8" +version = "1.14.1" +weakdeps = ["Adapt"] + + [deps.OffsetArrays.extensions] + OffsetArraysAdaptExt = "Adapt" [[deps.Ogg_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -874,7 +1385,7 @@ version = "1.3.5+1" [[deps.OpenBLAS_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"] uuid = "4536629a-c528-5b80-bd46-f80d51c5b363" -version = "0.3.20+0" +version = "0.3.23+4" [[deps.OpenEXR]] deps = ["Colors", "FileIO", "OpenEXR_jll"] @@ -883,21 +1394,33 @@ uuid = "52e1d378-f018-4a11-a4be-720524705ac7" version = "0.3.2" [[deps.OpenEXR_jll]] -deps = ["Artifacts", "Imath_jll", "JLLWrappers", "Libdl", "Pkg", "Zlib_jll"] -git-tree-sha1 = "923319661e9a22712f24596ce81c54fc0366f304" +deps = ["Artifacts", "Imath_jll", "JLLWrappers", "Libdl", "Zlib_jll"] +git-tree-sha1 = "8292dd5c8a38257111ada2174000a33745b06d4e" uuid = "18a262bb-aa17-5467-a713-aee519bc75cb" -version = "3.1.1+0" +version = "3.2.4+0" [[deps.OpenLibm_jll]] deps = ["Artifacts", "Libdl"] uuid = "05823500-19ac-5b8b-9628-191a04bc5112" -version = "0.8.1+0" +version = "0.8.1+2" + +[[deps.OpenMPI_jll]] +deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML", "Zlib_jll"] +git-tree-sha1 = "bfce6d523861a6c562721b262c0d1aaeead2647f" +uuid = "fe0851c0-eecd-5654-98d4-656369965a5c" +version = "5.0.5+0" + +[[deps.OpenSSL]] +deps = ["BitFlags", "Dates", "MozillaCACerts_jll", "OpenSSL_jll", "Sockets"] +git-tree-sha1 = "38cb508d080d21dc1128f7fb04f20387ed4c0af4" +uuid = "4d8831e6-92b7-49fb-bdf8-b643e874388c" +version = "1.4.3" [[deps.OpenSSL_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "f6e9dba33f9f2c44e08a020b0caf6903be540004" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "a028ee3cb5641cccc4c24e90c36b0a4f7707bdf5" uuid = "458c3c95-2e84-50aa-8efc-19380b2a3a95" -version = "1.1.19+0" +version = "3.0.14+0" [[deps.OpenSpecFun_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Pkg"] @@ -912,90 +1435,126 @@ uuid = "91d4177d-7536-5919-b921-800302f37372" version = "1.3.2+0" [[deps.OrderedCollections]] -git-tree-sha1 = "85f8e6578bf1f9ee0d11e7bb1b1456435479d47c" +git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5" uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d" -version = "1.4.1" +version = "1.6.3" + +[[deps.P11Kit_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "2cd396108e178f3ae8dedbd8e938a18726ab2fbf" +uuid = "c2071276-7c44-58a7-b746-946036e04d0a" +version = "0.24.1+0" [[deps.PCRE2_jll]] deps = ["Artifacts", "Libdl"] uuid = "efcefdf7-47ab-520b-bdef-62a2eaa19f15" -version = "10.40.0+0" +version = "10.42.0+1" [[deps.PDMats]] deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"] -git-tree-sha1 = "cf494dca75a69712a72b80bc48f59dcf3dea63ec" +git-tree-sha1 = "949347156c25054de2db3b166c52ac4728cbad65" uuid = "90014a1f-27ba-587c-ab20-58faa44d9150" -version = "0.11.16" +version = "0.11.31" [[deps.PNGFiles]] deps = ["Base64", "CEnum", "ImageCore", "IndirectArrays", "OffsetArrays", "libpng_jll"] -git-tree-sha1 = "f809158b27eba0c18c269cf2a2be6ed751d3e81d" +git-tree-sha1 = "67186a2bc9a90f9f85ff3cc8277868961fb57cbd" uuid = "f57f5aa1-a3ce-4bc8-8ab9-96f992907883" -version = "0.3.17" +version = "0.4.3" [[deps.Packing]] deps = ["GeometryBasics"] -git-tree-sha1 = "1155f6f937fa2b94104162f01fa400e192e4272f" +git-tree-sha1 = "ec3edfe723df33528e085e632414499f26650501" uuid = 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[[deps.PkgVersion]] deps = ["Pkg"] -git-tree-sha1 = "f6cf8e7944e50901594838951729a1861e668cb8" +git-tree-sha1 = "f9501cc0430a26bc3d156ae1b5b0c1b47af4d6da" uuid = "eebad327-c553-4316-9ea0-9fa01ccd7688" -version = "0.3.2" +version = "0.3.3" [[deps.PlotUtils]] -deps = ["ColorSchemes", "Colors", "Dates", "Printf", "Random", "Reexport", "SnoopPrecompile", "Statistics"] -git-tree-sha1 = "21303256d239f6b484977314674aef4bb1fe4420" +deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "Statistics"] +git-tree-sha1 = "7b1a9df27f072ac4c9c7cbe5efb198489258d1f5" uuid = "995b91a9-d308-5afd-9ec6-746e21dbc043" -version = "1.3.1" +version = "1.4.1" [[deps.PlutoUI]] deps = ["AbstractPlutoDingetjes", "Base64", "ColorTypes", "Dates", "FixedPointNumbers", "Hyperscript", "HypertextLiteral", "IOCapture", "InteractiveUtils", "JSON", "Logging", "MIMEs", "Markdown", "Random", "Reexport", "URIs", "UUIDs"] -git-tree-sha1 = "eadad7b14cf046de6eb41f13c9275e5aa2711ab6" +git-tree-sha1 = "ab55ee1510ad2af0ff674dbcced5e94921f867a9" uuid = "7f904dfe-b85e-4ff6-b463-dae2292396a8" -version = "0.7.49" +version = "0.7.59" + +[[deps.Polyester]] +deps = ["ArrayInterface", "BitTwiddlingConvenienceFunctions", "CPUSummary", "IfElse", "ManualMemory", "PolyesterWeave", "Static", "StaticArrayInterface", "StrideArraysCore", "ThreadingUtilities"] +git-tree-sha1 = "6d38fea02d983051776a856b7df75b30cf9a3c1f" +uuid = "f517fe37-dbe3-4b94-8317-1923a5111588" +version = "0.7.16" + +[[deps.PolyesterWeave]] +deps = ["BitTwiddlingConvenienceFunctions", "CPUSummary", "IfElse", "Static", "ThreadingUtilities"] +git-tree-sha1 = "645bed98cd47f72f67316fd42fc47dee771aefcd" +uuid = "1d0040c9-8b98-4ee7-8388-3f51789ca0ad" +version = "0.2.2" [[deps.PolygonOps]] git-tree-sha1 = "77b3d3605fc1cd0b42d95eba87dfcd2bf67d5ff6" uuid = "647866c9-e3ac-4575-94e7-e3d426903924" version = "0.1.2" +[[deps.PooledArrays]] +deps = ["DataAPI", "Future"] +git-tree-sha1 = 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"d7a7aef8f8f2d537104f170139553b14dfe39fe9" +git-tree-sha1 = "8f6bc219586aef8baf0ff9a5fe16ee9c70cb65e4" uuid = "92933f4c-e287-5a05-a399-4b506db050ca" -version = "1.7.2" +version = "1.10.2" + +[[deps.PtrArrays]] +git-tree-sha1 = "f011fbb92c4d401059b2212c05c0601b70f8b759" +uuid = "43287f4e-b6f4-7ad1-bb20-aadabca52c3d" +version = "1.2.0" [[deps.PyCall]] deps = ["Conda", "Dates", "Libdl", "LinearAlgebra", "MacroTools", "Serialization", "VersionParsing"] -git-tree-sha1 = "53b8b07b721b77144a0fbbbc2675222ebf40a02d" +git-tree-sha1 = "9816a3826b0ebf49ab4926e2b18842ad8b5c8f04" uuid = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0" -version = "1.94.1" +version = "1.96.4" [[deps.QOI]] deps = ["ColorTypes", "FileIO", "FixedPointNumbers"] @@ -1019,30 +1583,18 @@ git-tree-sha1 = "18e8f4d1426e965c7b532ddd260599e1510d26ce" uuid = "4b34888f-f399-49d4-9bb3-47ed5cae4e65" version = "1.0.0" -[[deps.QhullMiniWrapper_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Qhull_jll"] -git-tree-sha1 = 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"1342a47bf3260ee108163042310d26f2be5ec90b" uuid = "c84ed2f1-dad5-54f0-aa8e-dbefe2724439" -version = "0.4.3" +version = "0.4.5" +weakdeps = ["FixedPointNumbers"] + + [deps.Ratios.extensions] + RatiosFixedPointNumbersExt = "FixedPointNumbers" [[deps.Reexport]] git-tree-sha1 = "45e428421666073eab6f2da5c9d310d99bb12f9b" @@ -1063,9 +1619,9 @@ version = "1.2.2" [[deps.RelocatableFolders]] deps = ["SHA", "Scratch"] -git-tree-sha1 = "90bc7a7c96410424509e4263e277e43250c05691" +git-tree-sha1 = "ffdaf70d81cf6ff22c2b6e733c900c3321cab864" uuid = "05181044-ff0b-4ac5-8273-598c1e38db00" -version = "1.0.0" +version = "1.0.1" [[deps.Requires]] deps = ["UUIDs"] @@ -1075,44 +1631,78 @@ version = "1.3.0" [[deps.Rmath]] deps = ["Random", "Rmath_jll"] -git-tree-sha1 = "bf3188feca147ce108c76ad82c2792c57abe7b1f" +git-tree-sha1 = "f65dcb5fa46aee0cf9ed6274ccbd597adc49aa7b" uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa" -version = "0.7.0" +version = "0.7.1" [[deps.Rmath_jll]] -deps = ["Artifacts", "JLLWrappers", 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= ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Zlib_jll"] +git-tree-sha1 = "d9717ce3518dc68a99e6b96300813760d887a01d" uuid = "02c8fc9c-b97f-50b9-bbe4-9be30ff0a78a" -version = "2.9.14+0" +version = "2.13.1+0" [[deps.XSLT_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Libiconv_jll", "Pkg", "XML2_jll", "Zlib_jll"] -git-tree-sha1 = "91844873c4085240b95e795f692c4cec4d805f8a" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Libiconv_jll", "XML2_jll", "Zlib_jll"] +git-tree-sha1 = "a54ee957f4c86b526460a720dbc882fa5edcbefc" uuid = "aed1982a-8fda-507f-9586-7b0439959a61" -version = "1.1.34+0" +version = "1.1.41+0" + +[[deps.XZ_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "ac88fb95ae6447c8dda6a5503f3bafd496ae8632" +uuid = "ffd25f8a-64ca-5728-b0f7-c24cf3aae800" +version = "5.4.6+0" [[deps.Xorg_libX11_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libxcb_jll", "Xorg_xtrans_jll"] -git-tree-sha1 = "5be649d550f3f4b95308bf0183b82e2582876527" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libxcb_jll", "Xorg_xtrans_jll"] +git-tree-sha1 = "afead5aba5aa507ad5a3bf01f58f82c8d1403495" uuid = "4f6342f7-b3d2-589e-9d20-edeb45f2b2bc" -version = "1.6.9+4" +version = "1.8.6+0" [[deps.Xorg_libXau_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "4e490d5c960c314f33885790ed410ff3a94ce67e" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "6035850dcc70518ca32f012e46015b9beeda49d8" uuid = "0c0b7dd1-d40b-584c-a123-a41640f87eec" -version = "1.0.9+4" +version = "1.0.11+0" [[deps.Xorg_libXdmcp_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "4fe47bd2247248125c428978740e18a681372dd4" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "34d526d318358a859d7de23da945578e8e8727b7" uuid = "a3789734-cfe1-5b06-b2d0-1dd0d9d62d05" -version = "1.1.3+4" +version = "1.1.4+0" [[deps.Xorg_libXext_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll"] -git-tree-sha1 = "b7c0aa8c376b31e4852b360222848637f481f8c3" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] +git-tree-sha1 = "d2d1a5c49fae4ba39983f63de6afcbea47194e85" uuid = "1082639a-0dae-5f34-9b06-72781eeb8cb3" -version = "1.3.4+4" +version = "1.3.6+0" [[deps.Xorg_libXrender_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll"] -git-tree-sha1 = "19560f30fd49f4d4efbe7002a1037f8c43d43b96" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] +git-tree-sha1 = "47e45cd78224c53109495b3e324df0c37bb61fbe" uuid = "ea2f1a96-1ddc-540d-b46f-429655e07cfa" -version = "0.9.10+4" +version = "0.9.11+0" [[deps.Xorg_libpthread_stubs_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "6783737e45d3c59a4a4c4091f5f88cdcf0908cbb" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "8fdda4c692503d44d04a0603d9ac0982054635f9" uuid = "14d82f49-176c-5ed1-bb49-ad3f5cbd8c74" -version = "0.1.0+3" +version = "0.1.1+0" [[deps.Xorg_libxcb_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "XSLT_jll", "Xorg_libXau_jll", "Xorg_libXdmcp_jll", "Xorg_libpthread_stubs_jll"] -git-tree-sha1 = "daf17f441228e7a3833846cd048892861cff16d6" +deps = ["Artifacts", "JLLWrappers", "Libdl", "XSLT_jll", "Xorg_libXau_jll", "Xorg_libXdmcp_jll", "Xorg_libpthread_stubs_jll"] +git-tree-sha1 = "bcd466676fef0878338c61e655629fa7bbc69d8e" uuid = "c7cfdc94-dc32-55de-ac96-5a1b8d977c5b" -version = "1.13.0+3" +version = "1.17.0+0" [[deps.Xorg_xtrans_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "79c31e7844f6ecf779705fbc12146eb190b7d845" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "e92a1a012a10506618f10b7047e478403a046c77" uuid = "c5fb5394-a638-5e4d-96e5-b29de1b5cf10" -version = "1.4.0+3" +version = "1.5.0+0" + +[[deps.YAML]] +deps = ["Base64", "Dates", "Printf", "StringEncodings"] +git-tree-sha1 = "dea63ff72079443240fbd013ba006bcbc8a9ac00" +uuid = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6" +version = "0.4.12" + +[[deps.ZipFile]] +deps = ["Libdl", "Printf", "Zlib_jll"] +git-tree-sha1 = "f492b7fe1698e623024e873244f10d89c95c340a" +uuid = "a5390f91-8eb1-5f08-bee0-b1d1ffed6cea" +version = "0.10.1" [[deps.Zlib_jll]] deps = ["Libdl"] uuid = "83775a58-1f1d-513f-b197-d71354ab007a" -version = "1.2.12+3" +version = "1.2.13+1" + +[[deps.Zstd_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "e678132f07ddb5bfa46857f0d7620fb9be675d3b" +uuid = "3161d3a3-bdf6-5164-811a-617609db77b4" +version = "1.5.6+0" [[deps.isoband_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1364,11 +2102,17 @@ git-tree-sha1 = "51b5eeb3f98367157a7a12a1fb0aa5328946c03c" uuid = "9a68df92-36a6-505f-a73e-abb412b6bfb4" version = "0.2.3+0" +[[deps.libaec_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "46bf7be2917b59b761247be3f317ddf75e50e997" +uuid = "477f73a3-ac25-53e9-8cc3-50b2fa2566f0" +version = "1.1.2+0" + [[deps.libaom_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "3a2ea60308f0996d26f1e5354e10c24e9ef905d4" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "1827acba325fdcdf1d2647fc8d5301dd9ba43a9d" uuid = "a4ae2306-e953-59d6-aa16-d00cac43593b" -version = "3.4.0+0" +version = "3.9.0+0" [[deps.libass_jll]] deps = ["Artifacts", "Bzip2_jll", "FreeType2_jll", "FriBidi_jll", "HarfBuzz_jll", "JLLWrappers", "Libdl", "Pkg", "Zlib_jll"] @@ -1377,9 +2121,9 @@ uuid = "0ac62f75-1d6f-5e53-bd7c-93b484bb37c0" version = "0.15.1+0" [[deps.libblastrampoline_jll]] -deps = ["Artifacts", "Libdl", "OpenBLAS_jll"] +deps = ["Artifacts", "Libdl"] uuid = "8e850b90-86db-534c-a0d3-1478176c7d93" -version = "5.1.1+0" +version = "5.8.0+1" [[deps.libfdk_aac_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1388,10 +2132,10 @@ uuid = "f638f0a6-7fb0-5443-88ba-1cc74229b280" version = "2.0.2+0" [[deps.libpng_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Zlib_jll"] -git-tree-sha1 = "94d180a6d2b5e55e447e2d27a29ed04fe79eb30c" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Zlib_jll"] +git-tree-sha1 = "d7015d2e18a5fd9a4f47de711837e980519781a4" uuid = "b53b4c65-9356-5827-b1ea-8c7a1a84506f" -version = "1.6.38+0" +version = "1.6.43+1" [[deps.libsixel_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Pkg", "libpng_jll"] @@ -1401,19 +2145,31 @@ version = "1.10.3+0" [[deps.libvorbis_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Ogg_jll", "Pkg"] -git-tree-sha1 = "b910cb81ef3fe6e78bf6acee440bda86fd6ae00c" +git-tree-sha1 = "490376214c4721cdaca654041f635213c6165cb3" uuid = "f27f6e37-5d2b-51aa-960f-b287f2bc3b7a" -version = "1.3.7+1" +version = "1.3.7+2" + +[[deps.libzip_jll]] +deps = ["Artifacts", "Bzip2_jll", "GnuTLS_jll", "JLLWrappers", "Libdl", "XZ_jll", "Zlib_jll", "Zstd_jll"] +git-tree-sha1 = "3282b7d16ae7ac3e57ec2f3fa8fafb564d8f9f7f" +uuid = "337d8026-41b4-5cde-a456-74a10e5b31d1" +version = "1.10.1+0" [[deps.nghttp2_jll]] deps = ["Artifacts", "Libdl"] uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d" -version = "1.48.0+0" +version = "1.52.0+1" + +[[deps.oneTBB_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "7d0ea0f4895ef2f5cb83645fa689e52cb55cf493" +uuid = "1317d2d5-d96f-522e-a858-c73665f53c3e" +version = "2021.12.0+0" [[deps.p7zip_jll]] deps = ["Artifacts", "Libdl"] uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0" -version = "17.4.0+0" +version = "17.4.0+2" [[deps.x264_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] From e41ae7094a45814cd503ebbb16d94fcf796c038e Mon Sep 17 00:00:00 2001 From: gaelforget Date: Mon, 19 Aug 2024 12:39:20 -0400 Subject: [PATCH 2/4] another try w argopy --- docs/make.jl | 12 +++++++++--- 1 file changed, 9 insertions(+), 3 deletions(-) diff --git a/docs/make.jl b/docs/make.jl index 26580fe..4d13822 100644 --- a/docs/make.jl +++ b/docs/make.jl @@ -8,8 +8,11 @@ println(pth) #python dependencies -if Sys.ARCH!==:aarch64 - method="external" +run_argopy=true +Sys.ARCH!==:aarch64 ? run_argopy=false : nothing + +if run_argopy + method="internal" if method=="external" tmpfile=joinpath(tempdir(),"pythonpath.txt") run(pipeline(`which python`,tmpfile)) #external python path @@ -26,12 +29,15 @@ end makedocs(; modules=[ArgoData], format=Documenter.HTML(), +# format=Documenter.HTML(repolink = "github.com/euroargodev/ArgoData.jl.git"), pages=[ "Home" => "index.md", "Examples" => "examples.md", "Reference" => "Functionalities.md", ], repo="https://github.com/euroargodev/ArgoData.jl/blob/{commit}{path}#L{line}", +# repo = "github.com/euroargodev/ArgoData.jl.git", +# repo=Remotes.GitHub("euroargodev", "ArgoData.jl"), sitename="ArgoData.jl", authors="gaelforget ", warnonly = [:cross_references,:missing_docs], @@ -44,7 +50,7 @@ mv("Argo_float_files.csv",joinpath(@__DIR__,"build", "Argo_float_files.csv")) #run notebooks lst=("ArgoToMITprof.jl",) -Sys.ARCH!==:aarch64 ? lst=(lst...,"Argo_argopy.jl") : nothing +run_argopy ? lst=(lst...,"Argo_argopy.jl") : nothing for i in lst fil_in=joinpath(@__DIR__,"..", "examples",i) fil_out=joinpath(@__DIR__,"build", i[1:end-2]*"html") From 2923714e1394fcb74519212edc2b8f6e6904e84e Mon Sep 17 00:00:00 2001 From: gaelforget Date: Mon, 19 Aug 2024 12:53:13 -0400 Subject: [PATCH 3/4] another try w argopy --- docs/make.jl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/make.jl b/docs/make.jl index 4d13822..e61ee64 100644 --- a/docs/make.jl +++ b/docs/make.jl @@ -9,7 +9,7 @@ println(pth) #python dependencies run_argopy=true -Sys.ARCH!==:aarch64 ? run_argopy=false : nothing +Sys.ARCH==:aarch64 ? run_argopy=false : nothing if run_argopy method="internal" From d75ca5e52dd8b64b444eac4c5acc03607653bf9a Mon Sep 17 00:00:00 2001 From: gaelforget Date: Mon, 19 Aug 2024 13:31:12 -0400 Subject: [PATCH 4/4] another try w argopy --- docs/make.jl | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/docs/make.jl b/docs/make.jl index e61ee64..2bf76ac 100644 --- a/docs/make.jl +++ b/docs/make.jl @@ -1,5 +1,4 @@ using Documenter, ArgoData, PlutoSliderServer -import Pkg, PyCall, Conda using Climatology, MITgcm ENV["DATADEPS_ALWAYS_ACCEPT"]=true @@ -20,7 +19,10 @@ if run_argopy else ENV["PYTHON"]="" end + + using Pkg Pkg.build("PyCall") + using PyCall, Conda ArgoData.conda(:argopy) argopy=ArgoData.pyimport(:argopy) end