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| author | Frederick Muriuki Muriithi | 2021-09-16 11:36:42 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2021-09-16 11:36:42 +0300 |
| commit | 2cc9f382e199dbdbaab98c7e06deabd72e244adb (patch) | |
| tree | d0deef01db734d4c702642370a4cbb28eb43301f /gn3/heatmaps.py | |
| parent | 78e37440844a0397d29135a8ba215e54fd92c86d (diff) | |
| download | genenetwork3-2cc9f382e199dbdbaab98c7e06deabd72e244adb.tar.gz | |
Fix minor bugs
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi
* Fix a few minor bugs left over from the integration of code from the
proof-of-concept code.
Diffstat (limited to 'gn3/heatmaps.py')
| -rw-r--r-- | gn3/heatmaps.py | 8 |
1 files changed, 4 insertions, 4 deletions
diff --git a/gn3/heatmaps.py b/gn3/heatmaps.py index c48a2d3..170b0cd 100644 --- a/gn3/heatmaps.py +++ b/gn3/heatmaps.py @@ -160,7 +160,7 @@ def build_heatmap(traits_names, conn: Any): threshold = 0 # webqtlConfig.PUBLICTHRESH traits = [ retrieve_trait_info(threshold, fullname, conn) - for fullname in trait_fullnames()] + for fullname in traits_names] traits_data_list = [retrieve_trait_data(t, conn) for t in traits] genotype_filename = build_genotype_file(traits[0]["riset"]) genotype = parse_genotype_file(genotype_filename) @@ -338,9 +338,9 @@ def process_traits_data_for_heatmap(data, trait_names, chromosome_names): def generate_clustered_heatmap( data, image_filename_prefix, x_axis = None, x_label: str = "", y_axis = None, y_label: str = "", output_dir: str = TMPDIR, - colorscale = [ - [0.0, '#3B3B3B'], [0.4999999999999999, '#ABABAB'], - [0.5, '#F5DE11']], [1.0, '#FF0D00']): + colorscale = ( + (0.0, '#3B3B3B'), (0.4999999999999999, '#ABABAB'), + (0.5, '#F5DE11'), (1.0, '#FF0D00'))): """ Generate a dendrogram, and heatmaps for each chromosome, and put them all into one plot. |