From a886a62883b7700e05b2612d53b51b134bf730de Mon Sep 17 00:00:00 2001
From: Peter Huene <peter@huene.dev>
Date: Fri, 6 Sep 2024 14:56:59 -0500
Subject: [PATCH] fix: add `count` input to the demo WDL. (#25)

---
 crankshaft/demo.json | 3 ++-
 crankshaft/demo.wdl  | 3 ++-
 2 files changed, 4 insertions(+), 2 deletions(-)

diff --git a/crankshaft/demo.json b/crankshaft/demo.json
index bd9a9d5..c347c8d 100644
--- a/crankshaft/demo.json
+++ b/crankshaft/demo.json
@@ -1,3 +1,4 @@
 {
-    "url": "https://www.encodeproject.org/files/ENCFF863PGO/@@download/ENCFF863PGO.bam"
+    "url": "https://www.encodeproject.org/files/ENCFF863PGO/@@download/ENCFF863PGO.bam",
+    "count": 100000
 }
diff --git a/crankshaft/demo.wdl b/crankshaft/demo.wdl
index 20af475..6679d4d 100644
--- a/crankshaft/demo.wdl
+++ b/crankshaft/demo.wdl
@@ -5,10 +5,11 @@ version 1.2
 task samtools_flagstat {
     input {
         String url
+        Int count = 100000
     }
 
     command <<<
-        samtools flagstat <(wget -O - -q '~{url}' | samtools view -h | head -n 100000)
+        samtools flagstat <(wget -O - -q '~{url}' | samtools view -h | head -n ~{count})
     >>>
 
     requirements {