From 9cf20fa6a03f357a65d8b594488f0a0f44a20899 Mon Sep 17 00:00:00 2001
From: Chi Zhang <zhangchicool@gmail.com>
Date: Thu, 19 Oct 2023 11:14:11 +0800
Subject: [PATCH] changed year end to 2023

---
 src/bayes.c      |  2 +-
 src/command.c    |  2 +-
 src/likelihood.c |  2 +-
 src/mbbeagle.c   |  2 +-
 src/mcmc.c       |  2 +-
 src/model.c      | 23 +++++++++++------------
 src/proposal.c   |  2 +-
 src/sumpt.c      |  2 +-
 src/utils.c      |  2 +-
 9 files changed, 19 insertions(+), 20 deletions(-)

diff --git a/src/bayes.c b/src/bayes.c
index dfcecae..1a58a26 100644
--- a/src/bayes.c
+++ b/src/bayes.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
diff --git a/src/command.c b/src/command.c
index 4c27c3a..e4dede2 100644
--- a/src/command.c
+++ b/src/command.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
diff --git a/src/likelihood.c b/src/likelihood.c
index da63812..6f2b3fb 100644
--- a/src/likelihood.c
+++ b/src/likelihood.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
diff --git a/src/mbbeagle.c b/src/mbbeagle.c
index 1a0c4a6..9a47a58 100644
--- a/src/mbbeagle.c
+++ b/src/mbbeagle.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  This file originally contributed by:
  *
diff --git a/src/mcmc.c b/src/mcmc.c
index 28d2bcf..d78db4d 100644
--- a/src/mcmc.c
+++ b/src/mcmc.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
diff --git a/src/model.c b/src/model.c
index b430db1..cbdfc00 100644
--- a/src/model.c
+++ b/src/model.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
@@ -10806,12 +10806,11 @@ int DoStartvalsParm (char *parmName, char *tkn)
                             }
                         if (theTree->isClock == YES && modelParams[theTree->relParts[0]].treeAgePr.prior == fixed)
                             {
-                            if (!strcmp(modelParams[theTree->relParts[0]].clockPr,"Uniform") ||
-                                !strcmp(modelParams[theTree->relParts[0]].clockPr,"Birthdeath") ||
-                                !strcmp(modelParams[theTree->relParts[0]].clockPr,"Fossilization"))
-                                ;
-                                // We cannot check the consistency of root age and clock rate here because they can be set in any order. Defer this
-                                // check to the CheckModel fxn, called just before starting the chain.
+                            // if (!strcmp(modelParams[theTree->relParts[0]].clockPr,"Uniform") ||
+                            //    !strcmp(modelParams[theTree->relParts[0]].clockPr,"Birthdeath") ||
+                            //    !strcmp(modelParams[theTree->relParts[0]].clockPr,"Fossilization"));
+                            // We cannot check the consistency of root age and clock rate here because they can be set in any order.
+                            // Defer this check to the CheckModel fxn, called just before starting the chain.
                             }
                         /* the test will find suitable clock rate and ages of nodes in theTree */
                         if (theTree->isClock == YES && IsClockSatisfied (theTree,0.001) == NO)
@@ -19788,7 +19787,7 @@ int SetModelParams (void)
                             p->printParam = YES;
 
                         if (FillRelPartsString (p, &partString) == YES)
-                        {
+                            {
                             SafeSprintf(&tempStr, &tempStrSize, "pi(0)%s\tpi(1)%s\trootpi(0)%s\trootpi(1)%s", partString, partString, partString, partString);
                             SafeStrcat (&p->paramHeader, tempStr);
                             if (p->paramId == DIRPI_MIX)
@@ -19796,7 +19795,7 @@ int SetModelParams (void)
                                 SafeSprintf(&tempStr, &tempStrSize, "\tstatefrmod%s", partString);
                                 SafeStrcat (&p->paramHeader, tempStr);
                                 }
-                        }
+                            }
                         else
                             {
                             SafeStrcat (&p->paramHeader, "pi(0)\tpi(1)\trootpi(0)\trootpi(1)");
@@ -20323,7 +20322,7 @@ int SetModelParams (void)
                 }
             else for (i = 0; i < p->nValues; i++)
                 {
-                sprintf (tempStr, "\tnet_speciation_%d", i+1);
+                SafeSprintf(&tempStr, &tempStrSize, "\tnet_speciation_%d", i+1);
                 SafeStrcat (&p->paramHeader, tempStr);
                 SafeStrcat (&p->paramHeader, partString);
                 }
@@ -20365,7 +20364,7 @@ int SetModelParams (void)
                 }
             else for (i = 0; i < p->nValues; i++)
                 {
-                sprintf (tempStr, "\trelative_extinction_%d", i+1);
+                SafeSprintf(&tempStr, &tempStrSize, "\trelative_extinction_%d", i+1);
                 SafeStrcat (&p->paramHeader, tempStr);
                 SafeStrcat (&p->paramHeader, partString);
                 }
@@ -20404,7 +20403,7 @@ int SetModelParams (void)
                 }
             else for (i = 0; i < p->nValues; i++)
                 {
-                sprintf (tempStr, "\trelative_fossilization_%d", i+1);
+                SafeSprintf(&tempStr, &tempStrSize, "\trelative_fossilization_%d", i+1);
                 SafeStrcat (&p->paramHeader, tempStr);
                 SafeStrcat (&p->paramHeader, partString);
                 }
diff --git a/src/proposal.c b/src/proposal.c
index 006744a..fd711a0 100644
--- a/src/proposal.c
+++ b/src/proposal.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
diff --git a/src/sumpt.c b/src/sumpt.c
index 420a586..5337f18 100644
--- a/src/sumpt.c
+++ b/src/sumpt.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology
diff --git a/src/utils.c b/src/utils.c
index 6fc58b6..c591779 100644
--- a/src/utils.c
+++ b/src/utils.c
@@ -1,7 +1,7 @@
 /*
  *  MrBayes 3
  *
- *  (c) 2002-2013
+ *  (c) 2002-2023
  *
  *  John P. Huelsenbeck
  *  Dept. Integrative Biology