From 2074ae0b1dc6daf07a0c6026484464d9de324dfb Mon Sep 17 00:00:00 2001
From: Bo Li <bli25@berkeley.edu>
Date: Sat, 4 Jun 2016 03:33:25 -0700
Subject: [PATCH] Updated WHAT_IS_NEW

---
 WHAT_IS_NEW        | 7 +++++++
 rsem_perl_utils.pm | 2 +-
 2 files changed, 8 insertions(+), 1 deletion(-)

diff --git a/WHAT_IS_NEW b/WHAT_IS_NEW
index 3f0c1c6..f897484 100644
--- a/WHAT_IS_NEW
+++ b/WHAT_IS_NEW
@@ -1,3 +1,10 @@
+RSEM v1.2.31
+
+- Rewrote `rsem-gff3-to-gtf` to handle a more general set of GFF3 files 
+- Added safety checks to make sure poly(A) tails are not added to the reference when `--star` is set
+
+--------------------------------------------------------------------------------------------
+
 RSEM v1.2.30
 
 - Fixed a bug that can cause SAMtools sort to fail
diff --git a/rsem_perl_utils.pm b/rsem_perl_utils.pm
index 39a730b..783ee26 100644
--- a/rsem_perl_utils.pm
+++ b/rsem_perl_utils.pm
@@ -9,7 +9,7 @@ our @ISA = qw(Exporter);
 our @EXPORT = qw(runCommand);
 our @EXPORT_OK = qw(runCommand collectResults showVersionInfo getSAMTOOLS hasPolyA);
 
-my $version = "RSEM v1.2.30"; # Update version info here
+my $version = "RSEM v1.2.31"; # Update version info here
 my $samtools = "samtools-1.3"; # If update to another version of SAMtools, need to change this
 
 # command, {err_msg}