Add access to gmara gene lists.

tanaylab · Jul 3, 2024 · 7db6c52 · 7db6c52
1 parent a7c06c3
commit 7db6c52
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Showing 18 changed files with 944 additions and 6 deletions.
diff --git a/Project.toml b/Project.toml
@@ -6,12 +6,17 @@ version = "0.1.0"
 [deps]
 CSV = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
 Clustering = "aaaa29a8-35af-508c-8bc3-b662a17a0fe5"
+CodecZlib = "944b1d66-785c-5afd-91f1-9de20f533193"
+ConcurrentUtils = "3df5f688-6c4c-4767-8685-17f5ad261477"
 Daf = "1375bf9c-a47d-45a1-aad5-626dd8629d98"
 DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
 Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
+GZip = "92fee26a-97fe-5a0c-ad85-20a5f3185b63"
+HTTP = "cd3eb016-35fb-5094-929b-558a96fad6f3"
 LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
 Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
 Reexport = "189a3867-3050-52da-a836-e630ba90ab69"
+Serialization = "9e88b42a-f829-5b0c-bbe9-9e923198166b"
 SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
 Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
 

diff --git a/deps/document.jl b/deps/document.jl
@@ -46,7 +46,15 @@ makedocs(;
         prettyurls = false,
         size_threshold_warn = 200 * 2^10,
     ),
-    pages = ["index.md", "contracts.md", "identify_genes.md", "boxes.md", "anndata_format.md", "defaults.md"],
+    pages = [
+        "index.md",
+        "gmara.md",
+        "contracts.md",
+        "identify_genes.md",
+        "boxes.md",
+        "anndata_format.md",
+        "defaults.md",
+    ],
 )
 
 if seen_problems

diff --git a/deps/jet.py b/deps/jet.py
@@ -72,7 +72,7 @@ def is_disabled(path, line):
         context_changed = True
         depth = len(line.split(' ')[0])
 
-        while len(context_lines) >= depth:
+        while len(context_lines) >= max(depth, 1):
             context_lines.pop()
             context_disabled.pop()
 

diff --git a/docs/v0.1.0/.documenter-siteinfo.json b/docs/v0.1.0/.documenter-siteinfo.json
@@ -1 +1 @@
-{"documenter":{"julia_version":"1.10.4","generation_timestamp":"2024-06-26T11:20:38","documenter_version":"1.4.1"}}
+{"documenter":{"julia_version":"1.10.4","generation_timestamp":"2024-07-03T09:12:26","documenter_version":"1.4.1"}}
diff --git a/docs/v0.1.0/anndata_format.html b/docs/v0.1.0/anndata_format.html
@@ -53,6 +53,10 @@
 </a>
 </li>
 <li>
+<a class="tocitem" href="gmara.html">Gmara
+</a>
+</li>
+<li>
 <a class="tocitem" href="contracts.html">Contracts
 </a>
 </li>

diff --git a/docs/v0.1.0/boxes.html b/docs/v0.1.0/boxes.html
@@ -53,6 +53,10 @@
 </a>
 </li>
 <li>
+<a class="tocitem" href="gmara.html">Gmara
+</a>
+</li>
+<li>
 <a class="tocitem" href="contracts.html">Contracts
 </a>
 </li>

diff --git a/docs/v0.1.0/contracts.html b/docs/v0.1.0/contracts.html
@@ -52,6 +52,10 @@
 <a class="tocitem" href="index.html">Metacells
 </a>
 </li>
+<li>
+<a class="tocitem" href="gmara.html">Gmara
+</a>
+</li>
 <li class="is-active">
 <a class="tocitem" href="contracts.html">Contracts
 </a>
@@ -988,7 +992,7 @@ <h2 id="Index">
 </ul>
 </article>
 <nav class="docs-footer">
-<a class="docs-footer-prevpage" href="index.html">« Metacells
+<a class="docs-footer-prevpage" href="gmara.html">« Gmara
 </a>
 <a class="docs-footer-nextpage" href="identify_genes.html">Identify Genes »
 </a>

diff --git a/docs/v0.1.0/defaults.html b/docs/v0.1.0/defaults.html
@@ -53,6 +53,10 @@
 </a>
 </li>
 <li>
+<a class="tocitem" href="gmara.html">Gmara
+</a>
+</li>
+<li>
 <a class="tocitem" href="contracts.html">Contracts
 </a>
 </li>