update name space in XMLs #8

BEAST2-Dev · Nov 3, 2022 · b1dc41a · b1dc41a
1 parent bb113ef
commit b1dc41a
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Showing 7 changed files with 21 additions and 12 deletions.
diff --git a/examples/M0DALikelihood.xml b/examples/M0DALikelihood.xml
@@ -1,6 +1,11 @@
-<beast version="2.6" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree:
-beast.evolution.tree.coalescent:beast.base.util:beast.evolution.nuc:beast.evolution.operators:
-beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood">
+<beast version="2.7" namespace="beast.base.core:beast.base.inference:beast.base.evolution.alignment:
+                     beast.base.evolution.tree:beast.base.evolution.tree.coalescent:beast.base.util:
+                     beast.base.evolution.sitemodel:beast.base.evolution.substitutionmodel:
+                     beast.base.evolution.likelihood:beast.base.evolution.operators:
+                     codonmodels.evolution.alignment:codonmodels.evolution.datatype:
+                     codonmodels.evolution.likelihood:codonmodels.evolution.operators:
+                     codonmodels.evolution.tree:codonmodels.evolution.operators:
+                     codonmodels:codonmodels.util">
 
 
     <!-- ntax=6 nchar=768                                                        -->

diff --git a/examples/M0StandardLikelihood.xml b/examples/M0StandardLikelihood.xml
@@ -1,7 +1,11 @@
-<beast version="2.6" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree:
-beast.evolution.tree.coalescent:beast.base.util:beast.evolution.nuc:beast.evolution.operators:
-beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood">
-
+<beast version="2.7" namespace="beast.base.core:beast.base.inference:beast.base.evolution.alignment:
+                     beast.base.evolution.tree:beast.base.evolution.tree.coalescent:beast.base.util:
+                     beast.base.evolution.sitemodel:beast.base.evolution.substitutionmodel:
+                     beast.base.evolution.likelihood:beast.base.evolution.operators:
+                     codonmodels.evolution.alignment:codonmodels.evolution.datatype:
+                     codonmodels.evolution.likelihood:codonmodels.evolution.operators:
+                     codonmodels.evolution.tree:codonmodels.evolution.operators:
+                     codonmodels:codonmodels.util">
 
     <!-- ntax=6 nchar=768                                                        -->
     <data id="alignment" dataType="nucleotide">

diff --git a/examples/testApproxM0.xml b/examples/testApproxM0.xml
@@ -1,4 +1,4 @@
-<beast version="2.0" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree.coalescent:beast.pkgmgmt:beast.base.core:beast.base.inference.util:
+<beast version="2.7" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree.coalescent:beast.pkgmgmt:beast.base.core:beast.base.inference.util:
 beast.evolution.nuc:beast.evolution.operators:beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood">
 
     <!-- ntax=6 nchar=768                                                        -->

diff --git a/examples/testCodonLikelihood.xml b/examples/testCodonLikelihood.xml
@@ -1,4 +1,4 @@
-<beast version="2.0" namespace="beast.base.evolution.alignment:beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.tree.coalescent:
+<beast version="2.7" namespace="beast.base.evolution.alignment:beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.tree.coalescent:
                                 beast.base.util:beast.evolution.nuc:beast.base.evolution.operators:beast.base.evolution.sitemodel:
                                 beast.base.evolution.substitutionmodel:beast.base.evolution.likelihood">
 

diff --git a/examples/testCodonLikelihood2.xml b/examples/testCodonLikelihood2.xml
@@ -1,4 +1,4 @@
-<beast version="2.0" namespace="beast.base.evolution.alignment:beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.tree.coalescent:
+<beast version="2.7" namespace="beast.base.evolution.alignment:beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.tree.coalescent:
                                 beast.base.util:beast.evolution.nuc:beast.base.evolution.operators:beast.base.evolution.sitemodel:
                                 beast.base.evolution.substitutionmodel:beast.base.evolution.likelihood">
 

diff --git a/examples/testM0.xml b/examples/testM0.xml
@@ -1,4 +1,4 @@
-<beast version="2.0" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree.coalescent:beast.pkgmgmt:beast.base.core:beast.base.inference.util:
+<beast version="2.7" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree.coalescent:beast.pkgmgmt:beast.base.core:beast.base.inference.util:
 beast.evolution.nuc:beast.evolution.operators:beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood">
 
     <!-- ntax=6 nchar=768                                                        -->

diff --git a/examples/validateM0.xml b/examples/validateM0.xml
@@ -1,4 +1,4 @@
-<beast version="2.0" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree.coalescent:beast.pkgmgmt:beast.base.core:beast.base.inference.util:beast.evolution.nuc:beast.base.evolution.operator:beast.base.inference.operator:beast.base.evolution.sitemodel:beast.base.evolution.substitutionmodel:beast.base.evolution.likelihood">
+<beast version="2.7" namespace="beast.pkgmgmt:beast.base.core:beast.base.inference:beast.base.evolution.alignment:beast.base.evolution.tree.coalescent:beast.pkgmgmt:beast.base.core:beast.base.inference.util:beast.evolution.nuc:beast.base.evolution.operator:beast.base.inference.operator:beast.base.evolution.sitemodel:beast.base.evolution.substitutionmodel:beast.base.evolution.likelihood">
 
     <data id="alignment" dataType="nucleotide">
         [SeqsHere]