Fix type issues; relayout matrices.

tanaylab · Mar 29, 2024 · 60e3880 · 60e3880
1 parent 641b8f6
commit 60e3880
Show file tree

Hide file tree

Showing 4 changed files with 6 additions and 6 deletions.
diff --git a/docs/v0.1.0/.documenter-siteinfo.json b/docs/v0.1.0/.documenter-siteinfo.json
@@ -1 +1 @@
-{"documenter":{"julia_version":"1.10.2","generation_timestamp":"2024-03-29T17:16:36","documenter_version":"1.3.0"}}
+{"documenter":{"julia_version":"1.10.2","generation_timestamp":"2024-03-29T21:24:35","documenter_version":"1.3.0"}}
diff --git a/docs/v0.1.0/anndata_format.html b/docs/v0.1.0/anndata_format.html
@@ -161,7 +161,7 @@ <h1 id="AnnData-Format">
 <code class="language-julia hljs">function import_h5ads!(;
     destination::DafWriter,
     raw_cells_h5ad::Maybe{AbstractString} = nothing,
-    clean_cells_h5ad::AbstractString = nothing,
+    clean_cells_h5ad::AbstractString,
     metacells_h5ad::AbstractString,
     type_property::Maybe{AbstractString} = nothing,
     rename_type::Maybe{AbstractString} = &quot;type&quot;,

diff --git a/docs/v0.1.0/search_index.js b/docs/v0.1.0/search_index.js
diff --git a/src/anndata_format.jl b/src/anndata_format.jl
@@ -87,7 +87,7 @@ METACELLS_SQUARE_DATA = CopyData(["obs_outgoing_weights" => ("outgoing_weights",
     function import_h5ads!(;
         destination::DafWriter,
         raw_cells_h5ad::Maybe{AbstractString} = nothing,
-        clean_cells_h5ad::AbstractString = nothing,
+        clean_cells_h5ad::AbstractString,
         metacells_h5ad::AbstractString,
         type_property::Maybe{AbstractString} = nothing,
         rename_type::Maybe{AbstractString} = "type",
@@ -162,7 +162,7 @@ changes to match the ``Daf`` capabilities and conventions:
 function import_h5ads!(;
     destination::DafWriter,
     raw_cells_h5ad::Maybe{AbstractString} = nothing,
-    clean_cells_h5ad::AbstractString = nothing,
+    clean_cells_h5ad::AbstractString,
     metacells_h5ad::AbstractString,
     type_property::Maybe{AbstractString} = nothing,
     rename_type::Maybe{AbstractString} = "type",
@@ -392,7 +392,7 @@ function copy_matrices(
         data = get(copy_data, matrix_name, (matrix_name, nothing))
         if data != nothing
             rename, empty = data
-            if !has_matrix(destination, rows_axis, columns_axis, rename; relayout = false)
+            if !has_matrix(destination, rows_axis, columns_axis, rename; relayout = true)
                 copy_matrix!(;  # NOJET
                     destination = destination,
                     source = source,