From f8d21c604f9866892ee586a0015e5a5b3217d517 Mon Sep 17 00:00:00 2001 From: Thomas Yu Date: Mon, 11 May 2020 19:48:49 +0000 Subject: [PATCH 1/2] Fix panels --- genie/dashboardTemplate.Rmd | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/genie/dashboardTemplate.Rmd b/genie/dashboardTemplate.Rmd index 49354994..e0ad3a2e 100644 --- a/genie/dashboardTemplate.Rmd +++ b/genie/dashboardTemplate.Rmd @@ -562,7 +562,7 @@ if (!is.null(this_bed)) { return(seq_assay) } }) - relevant_panels = mutated_genes[, panels_covering_tp53] + relevant_panels = mutated_genes[, colnames(mutated_genes) %in% panels_covering_tp53] relevant_panels = relevant_panels[, colnames(relevant_panels) %in% unlist(tp53_not_top)] top_5_mutated_genes_string = apply(relevant_panels, 2, function(x) { top_5 = sort(x, decreasing = T)[1:5] From 27beb3b230fc543082c2d6d4c2b2d452102624aa Mon Sep 17 00:00:00 2001 From: Thomas Yu Date: Mon, 11 May 2020 21:09:49 +0000 Subject: [PATCH 2/2] Remove ToC first --- genie/dashboardTemplate.Rmd | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/genie/dashboardTemplate.Rmd b/genie/dashboardTemplate.Rmd index e0ad3a2e..c7b0015c 100644 --- a/genie/dashboardTemplate.Rmd +++ b/genie/dashboardTemplate.Rmd @@ -1,9 +1,9 @@ --- title: "%s Summary" -output: - html_document: - toc: true - toc_depth: 3 +output: html_document +# html_document: +# toc: true +# toc_depth: 3 params: genieUser: value: x