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CTUAvastLab · Feb 17, 2024 · 3376b47 · 3376b47
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diff --git a/dev/.documenter-siteinfo.json b/dev/.documenter-siteinfo.json
@@ -1 +1 @@
-{"documenter":{"julia_version":"1.10.0","generation_timestamp":"2024-02-07T09:32:01","documenter_version":"1.2.1"}}
+{"documenter":{"julia_version":"1.10.1","generation_timestamp":"2024-02-17T14:55:46","documenter_version":"1.2.1"}}
diff --git a/dev/api/aggregation/index.html b/dev/api/aggregation/index.html
diff --git a/dev/api/bags/index.html b/dev/api/bags/index.html
diff --git a/dev/api/data_nodes/index.html b/dev/api/data_nodes/index.html
diff --git a/dev/api/model_nodes/index.html b/dev/api/model_nodes/index.html
diff --git a/dev/api/special_arrays/index.html b/dev/api/special_arrays/index.html
diff --git a/dev/api/switches/index.html b/dev/api/switches/index.html
diff --git a/dev/api/utilities/index.html b/dev/api/utilities/index.html
diff --git a/dev/assets/dag.svg b/dev/assets/dag.svg
diff --git a/dev/assets/graph.svg b/dev/assets/graph.svg
diff --git a/dev/citation/index.html b/dev/citation/index.html
@@ -11,4 +11,4 @@
   title = {Mill.jl framework: a flexible library for (hierarchical) multi-instance learning},
   url = {https://github.com/CTUAvastLab/Mill.jl},
   version = {...},
-}</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../references/">« References</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Wednesday 7 February 2024 09:32">Wednesday 7 February 2024</span>. Using Julia version 1.10.0.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+}</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../references/">« References</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Saturday 17 February 2024 14:55">Saturday 17 February 2024</span>. Using Julia version 1.10.1.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/examples/dag/index.html b/dev/examples/dag/index.html
@@ -28,4 +28,4 @@
 end
 
 millneighbors!(cache, g::DagGraph, model::DagModel, i::Int) = millneighbors!(cache, g, model, inneighbors(g.g, i))
-ChainRulesCore.@non_differentiable inneighbors(g, i)</code></pre><p>Note that this recursive approach is not the most efficient way to implement this. It would be better to spent a little time with graphs to identify sets of vertices that can be processed in parallel and for which all ancestors are known. But this was a fun little exercise.</p></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../gnn/">« GNNs in 16 lines</a><a class="docs-footer-nextpage" href="../jsons/">Processing JSONs »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Wednesday 7 February 2024 09:32">Wednesday 7 February 2024</span>. Using Julia version 1.10.0.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+ChainRulesCore.@non_differentiable inneighbors(g, i)</code></pre><p>Note that this recursive approach is not the most efficient way to implement this. It would be better to spent a little time with graphs to identify sets of vertices that can be processed in parallel and for which all ancestors are known. But this was a fun little exercise.</p></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../gnn/">« GNNs in 16 lines</a><a class="docs-footer-nextpage" href="../jsons/">Processing JSONs »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Saturday 17 February 2024 14:55">Saturday 17 February 2024</span>. Using Julia version 1.10.1.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/examples/gnn/index.html b/dev/examples/gnn/index.html
diff --git a/dev/examples/jsons/index.html b/dev/examples/jsons/index.html
@@ -6,4 +6,4 @@
         <img class="display-dark-only"
             src="https://raw.githubusercontent.com/CTUAvastLab/JsonGrinder.jl/master/docs/src/assets/logo-dark.svg" alt="JsonGrinder.jl logo"/>
     </a>
-</p><h1 id="Processing-JSONs"><a class="docs-heading-anchor" href="#Processing-JSONs">Processing JSONs</a><a id="Processing-JSONs-1"></a><a class="docs-heading-anchor-permalink" href="#Processing-JSONs" title="Permalink"></a></h1><p>Processing JSONs is actually one of the main motivations for building <a href="https://github.com/CTUAvastLab/Mill.jl"><code>Mill.jl</code></a>. As a matter of fact, with <code>Mill</code> one is now able to process a set of valid JSON documents that follow the same meta schema. <a href="https://github.com/CTUAvastLab/JsonGrinder.jl"><code>JsonGrinder.jl</code></a> is a library that helps with infering the schema and other steps in the pipeline. For some examples, please refer to its <a href="https://CTUAvastLab.github.io/JsonGrinder.jl/stable">documentation</a>.</p></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../dag/">« DAGs</a><a class="docs-footer-nextpage" href="../../tools/hierarchical/">HierarchicalUtils.jl »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Wednesday 7 February 2024 09:32">Wednesday 7 February 2024</span>. Using Julia version 1.10.0.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+</p><h1 id="Processing-JSONs"><a class="docs-heading-anchor" href="#Processing-JSONs">Processing JSONs</a><a id="Processing-JSONs-1"></a><a class="docs-heading-anchor-permalink" href="#Processing-JSONs" title="Permalink"></a></h1><p>Processing JSONs is actually one of the main motivations for building <a href="https://github.com/CTUAvastLab/Mill.jl"><code>Mill.jl</code></a>. As a matter of fact, with <code>Mill</code> one is now able to process a set of valid JSON documents that follow the same meta schema. <a href="https://github.com/CTUAvastLab/JsonGrinder.jl"><code>JsonGrinder.jl</code></a> is a library that helps with infering the schema and other steps in the pipeline. For some examples, please refer to its <a href="https://CTUAvastLab.github.io/JsonGrinder.jl/stable">documentation</a>.</p></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../dag/">« DAGs</a><a class="docs-footer-nextpage" href="../../tools/hierarchical/">HierarchicalUtils.jl »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Saturday 17 February 2024 14:55">Saturday 17 February 2024</span>. Using Julia version 1.10.1.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
diff --git a/dev/examples/musk/Manifest.toml b/dev/examples/musk/Manifest.toml
@@ -1,6 +1,6 @@
 # This file is machine-generated - editing it directly is not advised
 
-julia_version = "1.10.0"
+julia_version = "1.10.1"
 manifest_format = "2.0"
 project_hash = "c980577c0415d2c228751f8ca1d6579dbbffa98a"
 
@@ -97,15 +97,15 @@ version = "0.5.0"
 
 [[deps.ChainRules]]
 deps = ["Adapt", "ChainRulesCore", "Compat", "Distributed", "GPUArraysCore", "IrrationalConstants", "LinearAlgebra", "Random", "RealDot", "SparseArrays", "SparseInverseSubset", "Statistics", "StructArrays", "SuiteSparse"]
-git-tree-sha1 = "213f001d1233fd3b8ef007f50c8cab29061917d8"
+git-tree-sha1 = "4e42872be98fa3343c4f8458cbda8c5c6a6fa97c"
 uuid = "082447d4-558c-5d27-93f4-14fc19e9eca2"
-version = "1.61.0"
+version = "1.63.0"
 
 [[deps.ChainRulesCore]]
 deps = ["Compat", "LinearAlgebra"]
-git-tree-sha1 = "ab79d1f9754a3988a7792caec43bfdc03996020f"
+git-tree-sha1 = "ad25e7d21ce10e01de973cdc68ad0f850a953c52"
 uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
-version = "1.21.0"
+version = "1.21.1"
 weakdeps = ["SparseArrays"]
 
     [deps.ChainRulesCore.extensions]
@@ -135,7 +135,7 @@ weakdeps = ["Dates", "LinearAlgebra"]
 [[deps.CompilerSupportLibraries_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
-version = "1.0.5+1"
+version = "1.1.0+0"
 
 [[deps.CompositionsBase]]
 git-tree-sha1 = "802bb88cd69dfd1509f6670416bd4434015693ad"
@@ -308,9 +308,9 @@ weakdeps = ["StaticArrays"]
 
 [[deps.Functors]]
 deps = ["LinearAlgebra"]
-git-tree-sha1 = "9a68d75d466ccc1218d0552a8e1631151c569545"
+git-tree-sha1 = "166c544477f97bbadc7179ede1c1868e0e9b426b"
 uuid = "d9f16b24-f501-4c13-a1f2-28368ffc5196"
-version = "0.4.5"
+version = "0.4.7"
 
 [[deps.Future]]
 deps = ["Random"]
@@ -378,9 +378,9 @@ version = "1.0.0"
 
 [[deps.JLD2]]
 deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "Pkg", "PrecompileTools", "Printf", "Reexport", "Requires", "TranscodingStreams", "UUIDs"]
-git-tree-sha1 = "7c0008f0b7622c6c0ee5c65cbc667b69f8a65672"
+git-tree-sha1 = "5ea6acdd53a51d897672edb694e3cc2912f3f8a7"
 uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819"
-version = "0.4.45"
+version = "0.4.46"
 
 [[deps.JLLWrappers]]
 deps = ["Artifacts", "Preferences"]
@@ -408,9 +408,9 @@ version = "0.9.16"
 
 [[deps.LLVM]]
 deps = ["CEnum", "LLVMExtra_jll", "Libdl", "Preferences", "Printf", "Requires", "Unicode"]
-git-tree-sha1 = "cb4619f7353fc62a1a22ffa3d7ed9791cfb47ad8"
+git-tree-sha1 = "9e70165cca7459d25406367f0c55e517a9a7bfe7"
 uuid = "929cbde3-209d-540e-8aea-75f648917ca0"
-version = "6.4.2"
+version = "6.5.0"
 
     [deps.LLVM.extensions]
     BFloat16sExt = "BFloat16s"
@@ -420,9 +420,9 @@ version = "6.4.2"
 
 [[deps.LLVMExtra_jll]]
 deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"]
-git-tree-sha1 = "98eaee04d96d973e79c25d49167668c5c8fb50e2"
+git-tree-sha1 = "114e3a48f13d4c18ddd7fd6a00107b4b96f60f9c"
 uuid = "dad2f222-ce93-54a1-a47d-0025e8a3acab"
-version = "0.0.27+1"
+version = "0.0.28+0"
 
 [[deps.LaTeXStrings]]
 git-tree-sha1 = "50901ebc375ed41dbf8058da26f9de442febbbec"
@@ -466,9 +466,9 @@ uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
 
 [[deps.LogExpFunctions]]
 deps = ["DocStringExtensions", "IrrationalConstants", "LinearAlgebra"]
-git-tree-sha1 = "7d6dd4e9212aebaeed356de34ccf262a3cd415aa"
+git-tree-sha1 = "18144f3e9cbe9b15b070288eef858f71b291ce37"
 uuid = "2ab3a3ac-af41-5b50-aa03-7779005ae688"
-version = "0.3.26"
+version = "0.3.27"
 
     [deps.LogExpFunctions.extensions]
     LogExpFunctionsChainRulesCoreExt = "ChainRulesCore"
@@ -519,7 +519,7 @@ version = "0.1.4"
 deps = ["Accessors", "ChainRulesCore", "Combinatorics", "DataFrames", "DataStructures", "FiniteDifferences", "Flux", "HierarchicalUtils", "LinearAlgebra", "MLUtils", "MacroTools", "OneHotArrays", "PooledArrays", "Preferences", "SparseArrays", "Statistics", "Test"]
 path = "../../../.."
 uuid = "1d0525e4-8992-11e8-313c-e310e1f6ddea"
-version = "2.10.0"
+version = "2.10.1"
 
 [[deps.Missings]]
 deps = ["DataAPI"]
@@ -536,9 +536,9 @@ version = "2023.1.10"
 
 [[deps.NNlib]]
 deps = ["Adapt", "Atomix", "ChainRulesCore", "GPUArraysCore", "KernelAbstractions", "LinearAlgebra", "Pkg", "Random", "Requires", "Statistics"]
-git-tree-sha1 = "d2811b435d2f571bdfdfa644bb806a66b458e186"
+git-tree-sha1 = "877f15c331337d54cf24c797d5bcb2e48ce21221"
 uuid = "872c559c-99b0-510c-b3b7-b6c96a88d5cd"
-version = "0.9.11"
+version = "0.9.12"
 
     [deps.NNlib.extensions]
     NNlibAMDGPUExt = "AMDGPU"
@@ -577,7 +577,7 @@ version = "0.2.5"
 [[deps.OpenBLAS_jll]]
 deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"]
 uuid = "4536629a-c528-5b80-bd46-f80d51c5b363"
-version = "0.3.23+2"
+version = "0.3.23+4"
 
 [[deps.OpenLibm_jll]]
 deps = ["Artifacts", "Libdl"]
@@ -592,9 +592,9 @@ version = "0.5.5+0"
 
 [[deps.Optimisers]]
 deps = ["ChainRulesCore", "Functors", "LinearAlgebra", "Random", "Statistics"]
-git-tree-sha1 = "34205b1204cc83c43cd9cfe53ffbd3b310f6e8c5"
+git-tree-sha1 = "264b061c1903bc0fe9be77cb9050ebacff66bb63"
 uuid = "3bd65402-5787-11e9-1adc-39752487f4e2"
-version = "0.3.1"
+version = "0.3.2"
 
 [[deps.OrderedCollections]]
 git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5"

diff --git a/dev/examples/musk/musk.ipynb b/dev/examples/musk/musk.ipynb
@@ -32,8 +32,8 @@
       "Status `~/work/Mill.jl/Mill.jl/docs/src/examples/musk/Project.toml`\n",
       "  [5789e2e9] FileIO v1.16.2\n",
       "  [587475ba] Flux v0.14.11\n",
-      "  [033835bb] JLD2 v0.4.45\n",
-      "  [1d0525e4] Mill v2.10.0 `../../../..`\n",
+      "  [033835bb] JLD2 v0.4.46\n",
+      "  [1d0525e4] Mill v2.10.1 `../../../..`\n",
       "  [0b1bfda6] OneHotArrays v0.2.5\n",
       "  [e88e6eb3] Zygote v0.6.69\n",
       "  [10745b16] Statistics v1.10.0\n"
@@ -417,11 +417,11 @@
    "file_extension": ".jl",
    "mimetype": "application/julia",
    "name": "julia",
-   "version": "1.10.0"
+   "version": "1.10.1"
   },
   "kernelspec": {
    "name": "julia-1.10",
-   "display_name": "Julia 1.10.0",
+   "display_name": "Julia 1.10.1",
    "language": "julia"
   }
  },

diff --git a/dev/examples/musk/musk/index.html b/dev/examples/musk/musk/index.html
@@ -98,4 +98,4 @@
 ┌ Info: Epoch 81
 └   training_loss = 0.030421462f0
 ┌ Info: Epoch 91
-└   training_loss = 0.023233365f0</code></pre><p>Finally, we calculate the (training) accuracy:</p><pre><code class="language-julia hljs">mean(Flux.onecold(model(ds), 1:2) .== y)</code></pre><pre class="documenter-example-output"><code class="nohighlight hljs ansi">1.0</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../../../manual/custom/">« Custom nodes</a><a class="docs-footer-nextpage" href="../../gnn/">GNNs in 16 lines »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Wednesday 7 February 2024 09:32">Wednesday 7 February 2024</span>. Using Julia version 1.10.0.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+└   training_loss = 0.023233365f0</code></pre><p>Finally, we calculate the (training) accuracy:</p><pre><code class="language-julia hljs">mean(Flux.onecold(model(ds), 1:2) .== y)</code></pre><pre class="documenter-example-output"><code class="nohighlight hljs ansi">1.0</code></pre></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../../../manual/custom/">« Custom nodes</a><a class="docs-footer-nextpage" href="../../gnn/">GNNs in 16 lines »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.2.1 on <span class="colophon-date" title="Saturday 17 February 2024 14:55">Saturday 17 February 2024</span>. Using Julia version 1.10.1.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>