From c5fb6ab94abd34a47fbd759751d7493bb5eacf67 Mon Sep 17 00:00:00 2001
From: Bryan Thornlow <bthornlo@ucsc.edu>
Date: Mon, 29 Nov 2021 12:02:58 -0500
Subject: [PATCH] Create prunePB.sh

---
 4_comparisons/prunePB.sh | 5 +++++
 1 file changed, 5 insertions(+)
 create mode 100644 4_comparisons/prunePB.sh

diff --git a/4_comparisons/prunePB.sh b/4_comparisons/prunePB.sh
new file mode 100644
index 0000000..cc1c92f
--- /dev/null
+++ b/4_comparisons/prunePB.sh
@@ -0,0 +1,5 @@
+for i in {1..50}
+do
+  matUtils extract -i STARTING_GROUND_TRUTH_TREE.pb -s ../CUMULATIVE_SAMPLES/${i}_samples.txt -o STARTING_GROUND_TRUTH_TREE_PRUNED_${i}.pb -T 30
+  matUtils extract -i STARTING_GROUND_TRUTH_TREE_PRUNED_${i}.pb -v SIM_CUMULATIVE_VCFS/${i}.vcf -T 30
+done;