Mercurial > repos > public > sbplib_julia

changeset 1204:0d9653171587 feature/dissipation_operators

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Merge default
author Jonatan Werpers <jonatan@werpers.com>
date Fri, 03 Feb 2023 10:06:20 +0100
parents 254934aac3f8 (current diff) d13b73e9f65e (diff)
children 99df343c7f61
files
diffstat 5 files changed, 179 insertions(+), 55 deletions(-) [+]
line wrap: on
line diff
--- a/Manifest.toml	Fri Feb 03 10:05:52 2023 +0100
+++ b/Manifest.toml	Fri Feb 03 10:06:20 2023 +0100
@@ -1,40 +1,40 @@
 # This file is machine-generated - editing it directly is not advised
 
-julia_version = "1.8.2"
+julia_version = "1.8.5"
 manifest_format = "2.0"
 project_hash = "b024d6898b484706c36ee3b2a041918f3a9d2088"
 
 [[deps.Adapt]]
 deps = ["LinearAlgebra"]
-git-tree-sha1 = "195c5505521008abea5aee4f96930717958eac6f"
+git-tree-sha1 = "0310e08cb19f5da31d08341c6120c047598f5b9c"
 uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
-version = "3.4.0"
+version = "3.5.0"
 
 [[deps.ArrayInterface]]
-deps = ["ArrayInterfaceCore", "Compat", "IfElse", "LinearAlgebra", "Static"]
-git-tree-sha1 = "d6173480145eb632d6571c148d94b9d3d773820e"
+deps = ["ArrayInterfaceCore", "Compat", "IfElse", "LinearAlgebra", "SnoopPrecompile", "Static"]
+git-tree-sha1 = "dedc16cbdd1d32bead4617d27572f582216ccf23"
 uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9"
-version = "6.0.23"
+version = "6.0.25"
 
 [[deps.ArrayInterfaceCore]]
-deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"]
-git-tree-sha1 = "5bb0f8292405a516880a3809954cb832ae7a31c5"
+deps = ["LinearAlgebra", "SnoopPrecompile", "SparseArrays", "SuiteSparse"]
+git-tree-sha1 = "e5f08b5689b1aad068e01751889f2f615c7db36d"
 uuid = "30b0a656-2188-435a-8636-2ec0e6a096e2"
-version = "0.1.20"
+version = "0.1.29"
 
 [[deps.Artifacts]]
 uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"
 
 [[deps.Compat]]
 deps = ["Dates", "LinearAlgebra", "UUIDs"]
-git-tree-sha1 = "5856d3031cdb1f3b2b6340dfdc66b6d9a149a374"
+git-tree-sha1 = "61fdd77467a5c3ad071ef8277ac6bd6af7dd4c04"
 uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
-version = "4.2.0"
+version = "4.6.0"
 
 [[deps.CompilerSupportLibraries_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
-version = "0.5.2+0"
+version = "1.0.1+0"
 
 [[deps.Dates]]
 deps = ["Printf"]
@@ -54,15 +54,21 @@
 
 [[deps.OffsetArrays]]
 deps = ["Adapt"]
-git-tree-sha1 = "1ea784113a6aa054c5ebd95945fa5e52c2f378e7"
+git-tree-sha1 = "82d7c9e310fe55aa54996e6f7f94674e2a38fcb4"
 uuid = "6fe1bfb0-de20-5000-8ca7-80f57d26f881"
-version = "1.12.7"
+version = "1.12.9"
 
 [[deps.OpenBLAS_jll]]
 deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"]
 uuid = "4536629a-c528-5b80-bd46-f80d51c5b363"
 version = "0.3.20+0"
 
+[[deps.Preferences]]
+deps = ["TOML"]
+git-tree-sha1 = "47e5f437cc0e7ef2ce8406ce1e7e24d44915f88d"
+uuid = "21216c6a-2e73-6563-6e65-726566657250"
+version = "1.3.0"
+
 [[deps.Printf]]
 deps = ["Unicode"]
 uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7"
@@ -78,15 +84,21 @@
 [[deps.Serialization]]
 uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"
 
+[[deps.SnoopPrecompile]]
+deps = ["Preferences"]
+git-tree-sha1 = "e760a70afdcd461cf01a575947738d359234665c"
+uuid = "66db9d55-30c0-4569-8b51-7e840670fc0c"
+version = "1.0.3"
+
 [[deps.SparseArrays]]
 deps = ["LinearAlgebra", "Random"]
 uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
 
 [[deps.Static]]
 deps = ["IfElse"]
-git-tree-sha1 = "de4f0a4f049a4c87e4948c04acff37baf1be01a6"
+git-tree-sha1 = "c35b107b61e7f34fa3f124026f2a9be97dea9e1c"
 uuid = "aedffcd0-7271-4cad-89d0-dc628f76c6d3"
-version = "0.7.7"
+version = "0.8.3"
 
 [[deps.SuiteSparse]]
 deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"]
@@ -99,9 +111,9 @@
 
 [[deps.TiledIteration]]
 deps = ["ArrayInterface", "OffsetArrays"]
-git-tree-sha1 = "5e02b75701f1905e55e44fc788bd13caedb5a6e3"
+git-tree-sha1 = "1bf2bb587a7fc99fefac2ff076b18b500128e9c0"
 uuid = "06e1c1a7-607b-532d-9fad-de7d9aa2abac"
-version = "0.4.1"
+version = "0.4.2"
 
 [[deps.UUIDs]]
 deps = ["Random", "SHA"]
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/WORKFLOW.md	Fri Feb 03 10:06:20 2023 +0100
@@ -0,0 +1,46 @@
+# Branch model
+
+The `default` branch contains stable code and the goal is that all tests should be passing on this branch. Version of the code are marked with mercurial tags. Changes in the code are developed in named branches which are closed and merged into `default` when the code is ready. During development merging `default` into the development branch is encouraged to avoid complicated conflicts.
+
+Branches are named using slash separated keywords. The first keyword describes the type of change being pursued in the branch. Important type keywords are
+ * feature
+ * bugfix
+ * refactor
+Further keywords may describe where, e.g. what sub package, the change happens. The last keyword should describe the change.
+
+Some examples:
+ * refactor/grids: Branch to refactor the grids module
+ * bugfix/lazy_tensors/lazyfunctionarray: Branch to fix a bug in LazyFunctionArray
+
+## Merging a branch into `default`
+The changes in a branch has been reviewed and deemed ready to merge the branch is closed and then merged.
+
+Before merging a development branch, `default` should be merge into the development branch to make sure the whole state of the code is reviewed and tested before it ends up on `default`.
+
+With the development branch active the following commands can be used to complete the merging of a development branch.
+```shell
+hg merge default
+hg commit --close-branch -m "Close before merge"
+hg update default
+hg merge development/branch
+hg commit -m "Merge development/branch"
+```
+
+# Review
+
+## Checklist for review
+* Push and pull new changes
+* Search and check TODOs
+* Search and check TBDs
+* Search and check REVIEWs
+* Review code
+* Review tests
+* Review docstrings
+* Render Documenter and check docstrings in browser
+* Run full tests
+
+# Special comments
+The following special comments are used:
+* `# TODO: `: Something that should be done at some point.
+* `# TBD: `:  "To be determined", i.e a decision that has to be made.
+* `# REVIEW: `: A review comment. Should only exist on development branches.
--- a/docs/Manifest.toml	Fri Feb 03 10:05:52 2023 +0100
+++ b/docs/Manifest.toml	Fri Feb 03 10:06:20 2023 +0100
@@ -1,7 +1,8 @@
 # This file is machine-generated - editing it directly is not advised
 
-julia_version = "1.7.1"
+julia_version = "1.8.5"
 manifest_format = "2.0"
+project_hash = "4f0756199bb5f6739a5f4697152617efc4e0705c"
 
 [[deps.ANSIColoredPrinters]]
 git-tree-sha1 = "574baf8110975760d391c710b6341da1afa48d8c"
@@ -10,9 +11,21 @@
 
 [[deps.Adapt]]
 deps = ["LinearAlgebra"]
-git-tree-sha1 = "af92965fb30777147966f58acb05da51c5616b5f"
+git-tree-sha1 = "0310e08cb19f5da31d08341c6120c047598f5b9c"
 uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
-version = "3.3.3"
+version = "3.5.0"
+
+[[deps.ArrayInterface]]
+deps = ["ArrayInterfaceCore", "Compat", "IfElse", "LinearAlgebra", "SnoopPrecompile", "Static"]
+git-tree-sha1 = "dedc16cbdd1d32bead4617d27572f582216ccf23"
+uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9"
+version = "6.0.25"
+
+[[deps.ArrayInterfaceCore]]
+deps = ["LinearAlgebra", "SnoopPrecompile", "SparseArrays", "SuiteSparse"]
+git-tree-sha1 = "e5f08b5689b1aad068e01751889f2f615c7db36d"
+uuid = "30b0a656-2188-435a-8636-2ec0e6a096e2"
+version = "0.1.29"
 
 [[deps.Artifacts]]
 uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"
@@ -20,9 +33,16 @@
 [[deps.Base64]]
 uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
 
+[[deps.Compat]]
+deps = ["Dates", "LinearAlgebra", "UUIDs"]
+git-tree-sha1 = "61fdd77467a5c3ad071ef8277ac6bd6af7dd4c04"
+uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
+version = "4.6.0"
+
 [[deps.CompilerSupportLibraries_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
+version = "1.0.1+0"
 
 [[deps.Dates]]
 deps = ["Printf"]
@@ -30,15 +50,15 @@
 
 [[deps.DocStringExtensions]]
 deps = ["LibGit2"]
-git-tree-sha1 = "b19534d1895d702889b219c382a6e18010797f0b"
+git-tree-sha1 = "2fb1e02f2b635d0845df5d7c167fec4dd739b00d"
 uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae"
-version = "0.8.6"
+version = "0.9.3"
 
 [[deps.Documenter]]
 deps = ["ANSIColoredPrinters", "Base64", "Dates", "DocStringExtensions", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "REPL", "Test", "Unicode"]
-git-tree-sha1 = "f425293f7e0acaf9144de6d731772de156676233"
+git-tree-sha1 = "58fea7c536acd71f3eef6be3b21c0df5f3df88fd"
 uuid = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
-version = "0.27.10"
+version = "0.27.24"
 
 [[deps.IOCapture]]
 deps = ["Logging", "Random"]
@@ -46,15 +66,20 @@
 uuid = "b5f81e59-6552-4d32-b1f0-c071b021bf89"
 version = "0.2.2"
 
+[[deps.IfElse]]
+git-tree-sha1 = "debdd00ffef04665ccbb3e150747a77560e8fad1"
+uuid = "615f187c-cbe4-4ef1-ba3b-2fcf58d6d173"
+version = "0.1.1"
+
 [[deps.InteractiveUtils]]
 deps = ["Markdown"]
 uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
 
 [[deps.JSON]]
 deps = ["Dates", "Mmap", "Parsers", "Unicode"]
-git-tree-sha1 = "8076680b162ada2a031f707ac7b4953e30667a37"
+git-tree-sha1 = "3c837543ddb02250ef42f4738347454f95079d4e"
 uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
-version = "0.21.2"
+version = "0.21.3"
 
 [[deps.LibGit2]]
 deps = ["Base64", "NetworkOptions", "Printf", "SHA"]
@@ -79,22 +104,30 @@
 
 [[deps.NetworkOptions]]
 uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908"
+version = "1.2.0"
 
 [[deps.OffsetArrays]]
 deps = ["Adapt"]
-git-tree-sha1 = "043017e0bdeff61cfbb7afeb558ab29536bbb5ed"
+git-tree-sha1 = "82d7c9e310fe55aa54996e6f7f94674e2a38fcb4"
 uuid = "6fe1bfb0-de20-5000-8ca7-80f57d26f881"
-version = "1.10.8"
+version = "1.12.9"
 
 [[deps.OpenBLAS_jll]]
 deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"]
 uuid = "4536629a-c528-5b80-bd46-f80d51c5b363"
+version = "0.3.20+0"
 
 [[deps.Parsers]]
-deps = ["Dates"]
-git-tree-sha1 = "d7fa6237da8004be601e19bd6666083056649918"
+deps = ["Dates", "SnoopPrecompile"]
+git-tree-sha1 = "151d91d63d8d6c1a5789ecb7de51547e00480f1b"
 uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0"
-version = "2.1.3"
+version = "2.5.4"
+
+[[deps.Preferences]]
+deps = ["TOML"]
+git-tree-sha1 = "47e5f437cc0e7ef2ce8406ce1e7e24d44915f88d"
+uuid = "21216c6a-2e73-6563-6e65-726566657250"
+version = "1.3.0"
 
 [[deps.Printf]]
 deps = ["Unicode"]
@@ -110,6 +143,7 @@
 
 [[deps.SHA]]
 uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce"
+version = "0.7.0"
 
 [[deps.Sbplib]]
 deps = ["TOML", "TiledIteration"]
@@ -120,22 +154,47 @@
 [[deps.Serialization]]
 uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"
 
+[[deps.SnoopPrecompile]]
+deps = ["Preferences"]
+git-tree-sha1 = "e760a70afdcd461cf01a575947738d359234665c"
+uuid = "66db9d55-30c0-4569-8b51-7e840670fc0c"
+version = "1.0.3"
+
 [[deps.Sockets]]
 uuid = "6462fe0b-24de-5631-8697-dd941f90decc"
 
+[[deps.SparseArrays]]
+deps = ["LinearAlgebra", "Random"]
+uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
+
+[[deps.Static]]
+deps = ["IfElse"]
+git-tree-sha1 = "c35b107b61e7f34fa3f124026f2a9be97dea9e1c"
+uuid = "aedffcd0-7271-4cad-89d0-dc628f76c6d3"
+version = "0.8.3"
+
+[[deps.SuiteSparse]]
+deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"]
+uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9"
+
 [[deps.TOML]]
 deps = ["Dates"]
 uuid = "fa267f1f-6049-4f14-aa54-33bafae1ed76"
+version = "1.0.0"
 
 [[deps.Test]]
 deps = ["InteractiveUtils", "Logging", "Random", "Serialization"]
 uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [[deps.TiledIteration]]
-deps = ["OffsetArrays"]
-git-tree-sha1 = "5683455224ba92ef59db72d10690690f4a8dc297"
+deps = ["ArrayInterface", "OffsetArrays"]
+git-tree-sha1 = "1bf2bb587a7fc99fefac2ff076b18b500128e9c0"
 uuid = "06e1c1a7-607b-532d-9fad-de7d9aa2abac"
-version = "0.3.1"
+version = "0.4.2"
+
+[[deps.UUIDs]]
+deps = ["Random", "SHA"]
+uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"
 
 [[deps.Unicode]]
 uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"
@@ -143,3 +202,4 @@
 [[deps.libblastrampoline_jll]]
 deps = ["Artifacts", "Libdl", "OpenBLAS_jll"]
 uuid = "8e850b90-86db-534c-a0d3-1478176c7d93"
+version = "5.1.1+0"
--- a/src/SbpOperators/stencil_set.jl	Fri Feb 03 10:05:52 2023 +0100
+++ b/src/SbpOperators/stencil_set.jl	Fri Feb 03 10:06:20 2023 +0100
@@ -14,7 +14,7 @@
 
 
 """
-read_stencil_set(filename; filters)
+    read_stencil_set(filename; filters)
 
 Creates a `StencilSet` from a TOML file based on some key-value
 filters. If more than one set matches the filters an error is raised. The
--- a/test/Manifest.toml	Fri Feb 03 10:05:52 2023 +0100
+++ b/test/Manifest.toml	Fri Feb 03 10:06:20 2023 +0100
@@ -1,6 +1,6 @@
 # This file is machine-generated - editing it directly is not advised
 
-julia_version = "1.8.2"
+julia_version = "1.8.5"
 manifest_format = "2.0"
 project_hash = "23260eda65ade7d11fffed313a68520d0bc053fc"
 
@@ -16,32 +16,32 @@
 
 [[deps.BenchmarkTools]]
 deps = ["JSON", "Logging", "Printf", "Profile", "Statistics", "UUIDs"]
-git-tree-sha1 = "4c10eee4af024676200bc7752e536f858c6b8f93"
+git-tree-sha1 = "d9a9701b899b30332bbcb3e1679c41cce81fb0e8"
 uuid = "6e4b80f9-dd63-53aa-95a3-0cdb28fa8baf"
-version = "1.3.1"
+version = "1.3.2"
 
 [[deps.ChainRulesCore]]
 deps = ["Compat", "LinearAlgebra", "SparseArrays"]
-git-tree-sha1 = "e7ff6cadf743c098e08fca25c91103ee4303c9bb"
+git-tree-sha1 = "c6d890a52d2c4d55d326439580c3b8d0875a77d9"
 uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
-version = "1.15.6"
+version = "1.15.7"
 
 [[deps.ChangesOfVariables]]
 deps = ["ChainRulesCore", "LinearAlgebra", "Test"]
-git-tree-sha1 = "38f7a08f19d8810338d4f5085211c7dfa5d5bdd8"
+git-tree-sha1 = "844b061c104c408b24537482469400af6075aae4"
 uuid = "9e997f8a-9a97-42d5-a9f1-ce6bfc15e2c0"
-version = "0.1.4"
+version = "0.1.5"
 
 [[deps.Compat]]
 deps = ["Dates", "LinearAlgebra", "UUIDs"]
-git-tree-sha1 = "5856d3031cdb1f3b2b6340dfdc66b6d9a149a374"
+git-tree-sha1 = "61fdd77467a5c3ad071ef8277ac6bd6af7dd4c04"
 uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
-version = "4.2.0"
+version = "4.6.0"
 
 [[deps.CompilerSupportLibraries_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
-version = "0.5.2+0"
+version = "1.0.1+0"
 
 [[deps.Dates]]
 deps = ["Printf"]
@@ -54,9 +54,9 @@
 
 [[deps.DiffRules]]
 deps = ["IrrationalConstants", "LogExpFunctions", "NaNMath", "Random", "SpecialFunctions"]
-git-tree-sha1 = "992a23afdb109d0d2f8802a30cf5ae4b1fe7ea68"
+git-tree-sha1 = "c5b6685d53f933c11404a3ae9822afe30d522494"
 uuid = "b552c78f-8df3-52c6-915a-8e097449b14b"
-version = "1.11.1"
+version = "1.12.2"
 
 [[deps.Distributed]]
 deps = ["Random", "Serialization", "Sockets"]
@@ -64,9 +64,9 @@
 
 [[deps.DocStringExtensions]]
 deps = ["LibGit2"]
-git-tree-sha1 = "5158c2b41018c5f7eb1470d558127ac274eca0c9"
+git-tree-sha1 = "2fb1e02f2b635d0845df5d7c167fec4dd739b00d"
 uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae"
-version = "0.9.1"
+version = "0.9.3"
 
 [[deps.Downloads]]
 deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"]
@@ -136,9 +136,9 @@
 
 [[deps.LogExpFunctions]]
 deps = ["ChainRulesCore", "ChangesOfVariables", "DocStringExtensions", "InverseFunctions", "IrrationalConstants", "LinearAlgebra"]
-git-tree-sha1 = "94d9c52ca447e23eac0c0f074effbcd38830deb5"
+git-tree-sha1 = "45b288af6956e67e621c5cbb2d75a261ab58300b"
 uuid = "2ab3a3ac-af41-5b50-aa03-7779005ae688"
-version = "0.3.18"
+version = "0.3.20"
 
 [[deps.Logging]]
 uuid = "56ddb016-857b-54e1-b83d-db4d58db5568"
@@ -186,10 +186,10 @@
 version = "0.5.5+0"
 
 [[deps.Parsers]]
-deps = ["Dates"]
-git-tree-sha1 = "3d5bf43e3e8b412656404ed9466f1dcbf7c50269"
+deps = ["Dates", "SnoopPrecompile"]
+git-tree-sha1 = "151d91d63d8d6c1a5789ecb7de51547e00480f1b"
 uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0"
-version = "2.4.0"
+version = "2.5.4"
 
 [[deps.Pkg]]
 deps = ["Artifacts", "Dates", "Downloads", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "REPL", "Random", "SHA", "Serialization", "TOML", "Tar", "UUIDs", "p7zip_jll"]
@@ -231,6 +231,12 @@
 [[deps.Serialization]]
 uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"
 
+[[deps.SnoopPrecompile]]
+deps = ["Preferences"]
+git-tree-sha1 = "e760a70afdcd461cf01a575947738d359234665c"
+uuid = "66db9d55-30c0-4569-8b51-7e840670fc0c"
+version = "1.0.3"
+
 [[deps.Sockets]]
 uuid = "6462fe0b-24de-5631-8697-dd941f90decc"