From c8c114d9eee118bf79b408ccfccfde8fd919045a Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Gordon=20J=2E=20K=C3=B6hn?= Date: Thu, 12 Sep 2024 15:01:44 +0200 Subject: [PATCH] fixing relative_amplicon_coverage rule --- workflows/amplicon_cov.smk | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/workflows/amplicon_cov.smk b/workflows/amplicon_cov.smk index 33c447e..89f39b4 100644 --- a/workflows/amplicon_cov.smk +++ b/workflows/amplicon_cov.smk @@ -14,12 +14,12 @@ rule relative_amplicon_coverage: sample_list = "/cluster/project/pangolin/work-amplicon-coverage/test_data/samples.tsv", samples = "/cluster/project/pangolin/work-amplicon-coverage/test_data/samples" output: - output_dir = output_dir + "/cov_heatmap.pdf" + output_dir = output_dir + "cov_heatmap.pdf" shell: """ python ../scripts/amplicon_covs.py \ -s {input.sample_list} \ -f {input.samples} \ - -r articV3primers.bed \ + -r {primers_fp} \ -o {output.output_dir} """ \ No newline at end of file