From 47201287306671b0c4cb70b2d65f5e00f577479d Mon Sep 17 00:00:00 2001
From: jaysonjeg <jayson.jeganathan@gmail.com>
Date: Wed, 1 Dec 2021 22:19:51 +1100
Subject: [PATCH 1/3] changed line 17 to rng(1), (for reproducibility)

---
 train/initGamma_random.m | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/train/initGamma_random.m b/train/initGamma_random.m
index 4269fb4..3498f89 100644
--- a/train/initGamma_random.m
+++ b/train/initGamma_random.m
@@ -14,7 +14,8 @@
 if nargin < 7, priorOFFvsON = 3; end 
 
 rng('default')
-rng('shuffle') % make this "truly" random
+%rng('shuffle') % make this "truly" random
+rng(1);
 
 % Form transition probability matrix
 if nessmodel

From b9079cf1126e226215eae483be47f1905b32278f Mon Sep 17 00:00:00 2001
From: jaysonjeg <jayson.jeganathan@gmail.com>
Date: Wed, 1 Dec 2021 22:20:53 +1100
Subject: [PATCH 2/3] lines 109-113, deleted last parameter
 options.priorOFFvsON

---
 train/hmmmar_init.m | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/train/hmmmar_init.m b/train/hmmmar_init.m
index 1166a7e..61f2156 100644
--- a/train/hmmmar_init.m
+++ b/train/hmmmar_init.m
@@ -109,7 +109,7 @@
     Gamma = initGamma_random(T-options.maxorder,options.K,...
         min(median(double(T))/10,500),...
         options.Pstructure,options.Pistructure,...
-        options.nessmodel,options.priorOFFvsON);
+        options.nessmodel);
     hmm = struct('train',struct());
     hmm.K = options.K;
     hmm.train = options;

From 66da55e5a369b7d7ac60efb8935d359932a8f3ba Mon Sep 17 00:00:00 2001
From: jaysonjeg <jayson.jeganathan@gmail.com>
Date: Wed, 1 Dec 2021 22:21:52 +1100
Subject: [PATCH 3/3] to prevent error with padGamma

---
 utils/general/padGamma.m | 8 ++++++--
 1 file changed, 6 insertions(+), 2 deletions(-)

diff --git a/utils/general/padGamma.m b/utils/general/padGamma.m
index b7b7c04..f4e226e 100644
--- a/utils/general/padGamma.m
+++ b/utils/general/padGamma.m
@@ -24,7 +24,11 @@
     T = cell2mat(T);
 end
 
-K = size(Gamma,2); offset = sum(d); N = length(T); Tshifted = T - offset;
+K = size(Gamma,2); 
+%offset = sum(d); 
+N = length(T);
+%Tshifted = T - offset;
+Tshifted=T;
 
 if do_upsample
     r = options.downsample / options.Fs;
@@ -56,4 +60,4 @@
 
 
 
-end
\ No newline at end of file
+end