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authorFrederick Muriuki Muriithi2021-10-04 04:46:14 +0300
committerBonfaceKilz2021-10-19 10:12:51 +0300
commitfe39bccc23186d0a0f0b51a792d4577aaca88bd1 (patch)
treea9360bb04a4105840114da781b3d7ca5cb18791c
parent77099cac68e8f4792bf54d8e1f7ce6f315bedfa7 (diff)
downloadgenenetwork3-fe39bccc23186d0a0f0b51a792d4577aaca88bd1.tar.gz
Remove file I/O statements
Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/non-clustered-heatmaps-and-flipping.gmi * Remove file I/O from the function. If file I/O is needed, it will be provided outside of this function.
-rw-r--r--gn3/heatmaps.py8
1 files changed, 4 insertions, 4 deletions
diff --git a/gn3/heatmaps.py b/gn3/heatmaps.py
index adbfbc6..42231bf 100644
--- a/gn3/heatmaps.py
+++ b/gn3/heatmaps.py
@@ -224,7 +224,6 @@ def build_heatmap(traits_names, conn: Any):
process_traits_data_for_heatmap(
organised, traits_ids, chromosome_names),
clustered,
- "single_heatmap_{}".format(random_string(10)),
y_axis=tuple(
ordered_traits_names[traits_ids[order]]
for order in traits_order),
@@ -355,6 +354,9 @@ def generate_clustered_heatmap(
loci_names: Sequence[Sequence[str]] = tuple(),
output_dir: str = TMPDIR,
colorscale=((0.0, '#0000FF'), (0.5, '#00FF00'), (1.0, '#FF0000'))):
+ data, clustering_data, x_axis=None, x_label: str = "", y_axis=None,
+ y_label: str = "", loci_names: Sequence[Sequence[str]] = tuple(),
+ colorscale=((0.0, '#0000FF'), (0.5, '#00FF00'), (1.0, '#FF0000'))):
"""
Generate a dendrogram, and heatmaps for each chromosome, and put them all
into one plot.
@@ -419,6 +421,4 @@ def generate_clustered_heatmap(
showlegend=True,
showscale=True,
selector={"name": x_axis[-1]})
- image_filename = "{}/{}.html".format(output_dir, image_filename_prefix)
- fig.write_html(image_filename)
- return image_filename, fig
+ return fig