From ed8776c44b8607904e8b8dc9291759c50e13a4fb Mon Sep 17 00:00:00 2001
From: Andy Boughton <abought@gmail.com>
Date: Thu, 19 Dec 2019 11:07:24 -0500
Subject: [PATCH 1/2] Fix display of tooltips when -log10p=Infinity

---
 locuszoom_plotting_service/templates/gwas/gwas_summary.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/locuszoom_plotting_service/templates/gwas/gwas_summary.html b/locuszoom_plotting_service/templates/gwas/gwas_summary.html
index 8809785..7da3d3e 100644
--- a/locuszoom_plotting_service/templates/gwas/gwas_summary.html
+++ b/locuszoom_plotting_service/templates/gwas/gwas_summary.html
@@ -150,7 +150,7 @@ <h3>QQ Plot:</h3>
     // Required as hardcoded global reference in PheWeb pheno.js
     window.model = {
       urlprefix: '{% filter add_token:token %}{% url 'gwas:region' gwas.slug %}{% endfilter %}',
-      tooltip_underscoretemplate: '<b><%- d.chrom %>:<%- d.pos.toLocaleString() %> <%- d.ref %> / <%- d.alt %></b><br>-log<sub>10</sub>(p): <%- d.neg_log_pvalue && d.neg_log_pvalue.toFixed(3) %><br>Nearest gene(s): <%- d.nearest_genes && d.nearest_genes.length && d.nearest_genes.map(function(gene) { return gene.symbol; }).join(", ") %>'
+      tooltip_underscoretemplate: '<b><%- d.chrom %>:<%- d.pos.toLocaleString() %> <%- d.ref %> / <%- d.alt %></b><br>-log<sub>10</sub>(p): <%- d.neg_log_pvalue && (+d.neg_log_pvalue).toFixed(3) %><br>Nearest gene(s): <%- d.nearest_genes && d.nearest_genes.length && d.nearest_genes.map(function(gene) { return gene.symbol; }).join(", ") %>'
     };
     window.pheno = '';
   </script>

From c69cc51a4f6a7fe07ce5e2b75c473bc08dcfdba1 Mon Sep 17 00:00:00 2001
From: Andy Boughton <abought@gmail.com>
Date: Thu, 19 Dec 2019 11:31:34 -0500
Subject: [PATCH 2/2] Fix "top hit" calculation near start of chromosome

---
 locuszoom_plotting_service/taskapp/tasks.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/locuszoom_plotting_service/taskapp/tasks.py b/locuszoom_plotting_service/taskapp/tasks.py
index 006a1e7..d4b4a84 100644
--- a/locuszoom_plotting_service/taskapp/tasks.py
+++ b/locuszoom_plotting_service/taskapp/tasks.py
@@ -122,7 +122,7 @@ def summarize_gwas(self, instance: models.AnalysisFileset):
         gwas=instance.metadata,
         label='Top hit',
         chrom=best_row.chrom,
-        start=best_row.pos - 250_000,
+        start=max(best_row.pos - 250_000, 1),
         end=best_row.pos + 250_000
     )
     instance.metadata.top_hit_view = top_hit