diff --git a/snakemodules/analysis.smk b/snakemodules/analysis.smk index 0806bef26814e2216bef2dffa994692ae4f2852b..babecada1119c31ec7f1f76f6e6ac4fabf0dcfb3 100644 --- a/snakemodules/analysis.smk +++ b/snakemodules/analysis.smk @@ -482,7 +482,8 @@ rule coverage_analysis: fasta = RESULTS_DIR + "/supercontigs.fa" output: RESULTS_DIR + "/heatmap_coverage.pdf", - RESULTS_DIR + "/heatmap_coverage.txt" + RESULTS_DIR + "/heatmap_coverage.txt", + RESULTS_DIR + "/contigs_sorted_by_length.txt" conda: os.path.join(WORKFLOW_PATH,"snakemodules/envs/notebooks.yml") benchmark: diff --git a/snakemodules/notebooks/contig_coverage_heatmap.py.ipynb b/snakemodules/notebooks/contig_coverage_heatmap.py.ipynb index d40567d9a37f0999210b9e842810f9078f543064..7e637e3a9277bf06e65c47c51cd5206604f8a2c8 100644 --- a/snakemodules/notebooks/contig_coverage_heatmap.py.ipynb +++ b/snakemodules/notebooks/contig_coverage_heatmap.py.ipynb @@ -215,7 +215,8 @@ "metadata": {}, "outputs": [], "source": [ - "coverage_df_cleaned.to_csv(snakemake.output[1], sep='\\t', index=False)" + "coverage_df_cleaned.to_csv(snakemake.output[1], sep='\\t')\n", + "df_sort_contig.to_csv(snakemake.output[2],sep='\\t', index=False)" ] }, {