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@sosiristseng
sosiristseng committed Jan 6, 2024
1 parent 9a593c7 commit bf6643c
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28 changes: 13 additions & 15 deletions .github/workflows/ci.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -16,7 +16,6 @@ env:
TIMEOUT: '-1' # nbconvert timeout
EXTRA_ARGS: '' # Extra arguments for nbconvert
CACHE_NUM: '1'
JULIA_NUM_THREADS: 'auto'
JULIA_CONDAPKG_BACKEND: 'Null'
JULIA_CI: 'true'
PY_VER: '3.12'
Expand Down Expand Up @@ -47,26 +46,25 @@ jobs:
with:
file: 'Manifest.toml'
field: 'julia_version'
- name: Install Julia using jill.sh
run: |
wget -O /tmp/jill.sh https://raw.githubusercontent.com/abelsiqueira/jill/main/jill.sh
bash /tmp/jill.sh --version ${{ steps.read_toml.outputs.value }} -y
echo "$HOME/.local/bin" >> $GITHUB_PATH
- name: Setup Julia
uses: julia-actions/setup-julia@v1
with:
version: ${{ steps.read_toml.outputs.value }}
show-versioninfo: 'true'
- name: Cache Julia packages
uses: actions/cache/restore@v3
id: cache-julia
with:
path: |
~/.julia
!~/.julia/registries
key: ${{ runner.os }}-julia-${{ env.CACHE_NUM }}-${{ hashFiles('src/**','Project.toml', 'Manifest.toml')}}
key: ${{ runner.os }}-julia-${{ steps.read_toml.outputs.value }}-${{ env.CACHE_NUM }}-${{ hashFiles('src/**','Project.toml', 'Manifest.toml')}}
restore-keys: |
${{ runner.os }}-julia-${{ env.CACHE_NUM }}-
${{ runner.os }}-julia-${{ steps.read_toml.outputs.value }}-${{ env.CACHE_NUM }}-
- name: Install Julia packages
if: ${{ steps.cache-julia.outputs.cache-hit != 'true' }}
run: |
julia --color=yes -e 'using Pkg; Pkg.add(["IJulia"])'
julia --project=@. --color=yes -e 'using Pkg, Dates; Pkg.instantiate(); Pkg.resolve(); Pkg.precompile(); Pkg.gc(collect_delay=Day(0))'
julia --project=@. --color=yes -e 'using Pkg, Dates; Pkg.instantiate(); Pkg.precompile(); Pkg.gc(collect_delay=Day(0))'
- name: Save Julia packages
uses: actions/cache/save@v3
if: ${{ steps.cache-julia.outputs.cache-hit != 'true' }}
Expand All @@ -76,16 +74,16 @@ jobs:
!~/.julia/registries
key: ${{ steps.cache-julia.outputs.cache-primary-key }}
- name: Install IJulia kernel
run: julia --color=yes -e 'using IJulia; installkernel("Julia", "--project=@.")'
run: julia --project=@. --color=yes -e 'using IJulia; installkernel("Julia", "--project=@.")'
- name: Execute Notebooks
run: >
find docs -type f -name '*.ipynb' |
parallel --joblog /tmp/log -j${NJOBS} jupyter nbconvert --to notebook --execute --inplace ${{ env.EXTRA_ARGS }}
parallel --joblog /tmp/job.log -j${NJOBS} jupyter nbconvert --to notebook --execute --inplace ${{ env.EXTRA_ARGS }}
--ExecutePreprocessor.timeout=${{ env.TIMEOUT }}
--ExecutePreprocessor.kernel_name=julia-1.$(julia -e 'print(VERSION.minor)')
{}
- name: Show execution stats
run: cat /tmp/log
run: cat /tmp/job.log
- name: Build website
run: jupyter-book build docs/
- name: Upload pages artifact
Expand All @@ -94,15 +92,15 @@ jobs:
with:
path: docs/_build/html/

# Deployment job
# Deploy pages
deploy:
name: Deploy to GitHub pages
needs: CI
if: ${{ github.ref == 'refs/heads/main' }}
# Grant GITHUB_TOKEN the permissions required to make a Pages deployment
permissions:
pages: write # to deploy to Pages
id-token: write # to verify the deployment originates from an appropriate source
actions: read # to download an artifact uploaded by `actions/upload-pages-artifact@v3`
environment:
name: github-pages
url: ${{ steps.deployment.outputs.page_url }}
Expand Down
76 changes: 59 additions & 17 deletions Manifest.toml
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Original file line number Diff line number Diff line change
@@ -1,8 +1,8 @@
# This file is machine-generated - editing it directly is not advised

julia_version = "1.9.4"
julia_version = "1.10.0"
manifest_format = "2.0"
project_hash = "6ed3a8c90c7597f40fcfac54d613d9fb8bd1baa0"
project_hash = "9b8b05ab66cf2c8bbdaaf2a29b814c8ff9d2620f"

[[deps.ArgTools]]
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
Expand Down Expand Up @@ -80,14 +80,20 @@ weakdeps = ["Dates", "LinearAlgebra"]
[[deps.CompilerSupportLibraries_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
version = "1.0.5+0"
version = "1.0.5+1"

[[deps.ConcurrentUtilities]]
deps = ["Serialization", "Sockets"]
git-tree-sha1 = "8cfa272e8bdedfa88b6aefbbca7c19f1befac519"
uuid = "f0e56b4a-5159-44fe-b623-3e5288b988bb"
version = "2.3.0"

[[deps.Conda]]
deps = ["Downloads", "JSON", "VersionParsing"]
git-tree-sha1 = "51cab8e982c5b598eea9c8ceaced4b58d9dd37c9"
uuid = "8f4d0f93-b110-5947-807f-2305c1781a2d"
version = "1.10.0"

[[deps.CondaPkg]]
deps = ["JSON3", "Markdown", "MicroMamba", "Pidfile", "Pkg", "Preferences", "TOML"]
git-tree-sha1 = "e81c4263c7ef4eca4d645ef612814d72e9255b41"
Expand Down Expand Up @@ -252,6 +258,12 @@ git-tree-sha1 = "129acf094d168394e80ee1dc4bc06ec835e510a3"
uuid = "2e76f6c2-a576-52d4-95c1-20adfe4de566"
version = "2.8.1+1"

[[deps.IJulia]]
deps = ["Base64", "Conda", "Dates", "InteractiveUtils", "JSON", "Libdl", "Logging", "Markdown", "MbedTLS", "Pkg", "Printf", "REPL", "Random", "SoftGlobalScope", "Test", "UUIDs", "ZMQ"]
git-tree-sha1 = "47ac8cc196b81001a711f4b2c12c97372338f00c"
uuid = "7073ff75-c697-5162-941a-fcdaad2a7d2a"
version = "1.24.2"

[[deps.InteractiveUtils]]
deps = ["Markdown"]
uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
Expand Down Expand Up @@ -360,9 +372,14 @@ uuid = "deac9b47-8bc7-5906-a0fe-35ac56dc84c0"
version = "8.4.0+0"

[[deps.LibGit2]]
deps = ["Base64", "NetworkOptions", "Printf", "SHA"]
deps = ["Base64", "LibGit2_jll", "NetworkOptions", "Printf", "SHA"]
uuid = "76f85450-5226-5b5a-8eaa-529ad045b433"

[[deps.LibGit2_jll]]
deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll"]
uuid = "e37daf67-58a4-590a-8e99-b0245dd2ffc5"
version = "1.6.4+0"

[[deps.LibSSH2_jll]]
deps = ["Artifacts", "Libdl", "MbedTLS_jll"]
uuid = "29816b5a-b9ab-546f-933c-edad1886dfa8"
Expand Down Expand Up @@ -467,7 +484,7 @@ version = "1.1.9"
[[deps.MbedTLS_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "c8ffd9c3-330d-5841-b78e-0817d7145fa1"
version = "2.28.2+0"
version = "2.28.2+1"

[[deps.Measures]]
git-tree-sha1 = "c13304c81eec1ed3af7fc20e75fb6b26092a1102"
Expand All @@ -491,7 +508,7 @@ uuid = "a63ad114-7e13-5084-954f-fe012c677804"

[[deps.MozillaCACerts_jll]]
uuid = "14a3606d-f60d-562e-9121-12d972cd8159"
version = "2022.10.11"
version = "2023.1.10"

[[deps.NaNMath]]
deps = ["OpenLibm_jll"]
Expand All @@ -512,12 +529,12 @@ version = "1.3.5+1"
[[deps.OpenBLAS_jll]]
deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"]
uuid = "4536629a-c528-5b80-bd46-f80d51c5b363"
version = "0.3.21+4"
version = "0.3.23+2"

[[deps.OpenLibm_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "05823500-19ac-5b8b-9628-191a04bc5112"
version = "0.8.1+0"
version = "0.8.1+2"

[[deps.OpenSSL]]
deps = ["BitFlags", "Dates", "MozillaCACerts_jll", "OpenSSL_jll", "Sockets"]
Expand Down Expand Up @@ -545,7 +562,7 @@ version = "1.6.3"
[[deps.PCRE2_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "efcefdf7-47ab-520b-bdef-62a2eaa19f15"
version = "10.42.0+0"
version = "10.42.0+1"

[[deps.Parsers]]
deps = ["Dates", "PrecompileTools", "UUIDs"]
Expand Down Expand Up @@ -573,7 +590,7 @@ version = "0.42.2+0"
[[deps.Pkg]]
deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "REPL", "Random", "SHA", "Serialization", "TOML", "Tar", "UUIDs", "p7zip_jll"]
uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
version = "1.9.2"
version = "1.10.0"

[[deps.PlotThemes]]
deps = ["PlotUtils", "Statistics"]
Expand Down Expand Up @@ -646,7 +663,7 @@ deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"]
uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb"

[[deps.Random]]
deps = ["SHA", "Serialization"]
deps = ["SHA"]
uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"

[[deps.RecipesBase]]
Expand Down Expand Up @@ -705,6 +722,12 @@ version = "1.1.0"
[[deps.Sockets]]
uuid = "6462fe0b-24de-5631-8697-dd941f90decc"

[[deps.SoftGlobalScope]]
deps = ["REPL"]
git-tree-sha1 = "986ec2b6162ccb95de5892ed17832f95badf770c"
uuid = "b85f4697-e234-5449-a836-ec8e2f98b302"
version = "1.1.0"

[[deps.SortingAlgorithms]]
deps = ["DataStructures"]
git-tree-sha1 = "5165dfb9fd131cf0c6957a3a7605dede376e7b63"
Expand All @@ -714,11 +737,12 @@ version = "1.2.0"
[[deps.SparseArrays]]
deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"]
uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
version = "1.10.0"

[[deps.Statistics]]
deps = ["LinearAlgebra", "SparseArrays"]
uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
version = "1.9.0"
version = "1.10.0"

[[deps.StatsAPI]]
deps = ["LinearAlgebra"]
Expand All @@ -739,9 +763,9 @@ uuid = "856f2bd8-1eba-4b0a-8007-ebc267875bd4"
version = "1.10.0"

[[deps.SuiteSparse_jll]]
deps = ["Artifacts", "Libdl", "Pkg", "libblastrampoline_jll"]
deps = ["Artifacts", "Libdl", "libblastrampoline_jll"]
uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c"
version = "5.10.1+6"
version = "7.2.1+1"

[[deps.TOML]]
deps = ["Dates"]
Expand Down Expand Up @@ -1017,10 +1041,22 @@ git-tree-sha1 = "e92a1a012a10506618f10b7047e478403a046c77"
uuid = "c5fb5394-a638-5e4d-96e5-b29de1b5cf10"
version = "1.5.0+0"

[[deps.ZMQ]]
deps = ["FileWatching", "Sockets", "ZeroMQ_jll"]
git-tree-sha1 = "356d2bdcc0bce90aabee1d1c0f6d6f301eda8f77"
uuid = "c2297ded-f4af-51ae-bb23-16f91089e4e1"
version = "1.2.2"

[[deps.ZeroMQ_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "libsodium_jll"]
git-tree-sha1 = "fe5c65a526f066fb3000da137d5785d9649a8a47"
uuid = "8f1865be-045e-5c20-9c9f-bfbfb0764568"
version = "4.3.4+0"

[[deps.Zlib_jll]]
deps = ["Libdl"]
uuid = "83775a58-1f1d-513f-b197-d71354ab007a"
version = "1.2.13+0"
version = "1.2.13+1"

[[deps.Zstd_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
Expand Down Expand Up @@ -1061,7 +1097,7 @@ version = "0.15.1+0"
[[deps.libblastrampoline_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "8e850b90-86db-534c-a0d3-1478176c7d93"
version = "5.8.0+0"
version = "5.8.0+1"

[[deps.libevdev_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
Expand All @@ -1087,6 +1123,12 @@ git-tree-sha1 = "93284c28274d9e75218a416c65ec49d0e0fcdf3d"
uuid = "b53b4c65-9356-5827-b1ea-8c7a1a84506f"
version = "1.6.40+0"

[[deps.libsodium_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "848ab3d00fe39d6fbc2a8641048f8f272af1c51e"
uuid = "a9144af2-ca23-56d9-984f-0d03f7b5ccf8"
version = "1.0.20+0"

[[deps.libvorbis_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Ogg_jll", "Pkg"]
git-tree-sha1 = "b910cb81ef3fe6e78bf6acee440bda86fd6ae00c"
Expand All @@ -1113,7 +1155,7 @@ version = "1.52.0+1"
[[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"]
Expand Down
1 change: 1 addition & 0 deletions Project.toml
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Original file line number Diff line number Diff line change
@@ -1,3 +1,4 @@
[deps]
IJulia = "7073ff75-c697-5162-941a-fcdaad2a7d2a"
Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"
PythonPlot = "274fc56d-3b97-40fa-a1cd-1b4a50311bf9"

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