Skip to content

Commit

Permalink
add substitution model code and frequencies to the items in the drop …
Browse files Browse the repository at this point in the history 
…list #2
  • Loading branch information
@walterxie
walterxie committed May 16, 2017
1 parent 1e7ee77 commit e873a89
Showing 1 changed file with 22 additions and 22 deletions.
44 changes: 22 additions & 22 deletions templates/Nucleotide.xml
View file
Original file line number Diff line number Diff line change
Expand Up @@ -14,7 +14,7 @@

<!-- JC = model: 000000 equal frequencies-->

<subtemplate id="Standard:JC" class="substmodels.nucleotide.JC" mainid="Standard_JC.s:$(n)"
<subtemplate id="Standard:JC 000000 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_JC.s:$(n)"
suppressInputs="substmodels.nucleotide.JC.frequencies,
substmodels.nucleotide.JC.rates,
substmodels.nucleotide.JC.eigenSystem">
Expand All @@ -28,7 +28,7 @@

<!-- F81 = model: 000000 unequal frequencies-->

<subtemplate id="Standard:F81" class="substmodels.nucleotide.JC" mainid="Standard_F81.s:$(n)"
<subtemplate id="Standard:F81 000000 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_F81.s:$(n)"
suppressInputs="substmodels.nucleotide.F81.frequencies,
substmodels.nucleotide.F81.rates,
substmodels.nucleotide.F81.eigenSystem">
Expand Down Expand Up @@ -58,7 +58,7 @@

<!-- K80 = model: 010010 equal frequencies-->

<subtemplate id="Standard_K80" class="substmodels.nucleotide.JC" mainid="Standard_K80.s:$(n)"
<subtemplate id="Standard_K80 010010 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_K80.s:$(n)"
suppressInputs="substmodels.nucleotide.K80.frequencies,
substmodels.nucleotide.K80.rates,
substmodels.nucleotide.K80.eigenSystem">
Expand All @@ -85,7 +85,7 @@

<!-- HKY = model: 010010 unequal frequencies-->

<subtemplate id="Standard_HKY" class="substmodels.nucleotide.JC" mainid="Standard_HKY.s:$(n)"
<subtemplate id="Standard_HKY 010010 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_HKY.s:$(n)"
suppressInputs="substmodels.nucleotide.HKY.frequencies,
substmodels.nucleotide.HKY.rates,
substmodels.nucleotide.HKY.eigenSystem">
Expand Down Expand Up @@ -122,7 +122,7 @@

<!-- TrNef = model: 010020 equal frequencies-->

<subtemplate id="Standard_TrNef" class="substmodels.nucleotide.JC" mainid="Standard_TrNef.s:$(n)"
<subtemplate id="Standard_TrNef 010020 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TrNef.s:$(n)"
suppressInputs="substmodels.nucleotide.TrNef.frequencies,
substmodels.nucleotide.TrNef.rates,
substmodels.nucleotide.TrNef.eigenSystem">
Expand All @@ -149,7 +149,7 @@

<!-- TrN = model: 010020 unequal frequencies-->

<subtemplate id="Standard_TrN" class="substmodels.nucleotide.JC" mainid="Standard_TrN.s:$(n)"
<subtemplate id="Standard_TrN 010020 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TrN.s:$(n)"
suppressInputs="substmodels.nucleotide.TrN.frequencies,
substmodels.nucleotide.TrN.rates,
substmodels.nucleotide.TrN.eigenSystem">
Expand Down Expand Up @@ -186,7 +186,7 @@

<!-- TPM1 = model: 012210 equal frequencies-->

<subtemplate id="Standard_TPM1" class="substmodels.nucleotide.JC" mainid="Standard_TPM1.s:$(n)"
<subtemplate id="Standard_TPM1 012210 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TPM1.s:$(n)"
suppressInputs="substmodels.nucleotide.TPM1.frequencies,
substmodels.nucleotide.TPM1.rates,
substmodels.nucleotide.TPM1.eigenSystem">
Expand All @@ -213,7 +213,7 @@

<!-- TPM1uf = model: 012210 unequal frequencies-->

<subtemplate id="Standard_TPM1uf" class="substmodels.nucleotide.JC" mainid="Standard_TPM1uf.s:$(n)"
<subtemplate id="Standard_TPM1uf 012210 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TPM1uf.s:$(n)"
suppressInputs="substmodels.nucleotide.TPM1uf.frequencies,
substmodels.nucleotide.TPM1uf.rates,
substmodels.nucleotide.TPM1uf.eigenSystem">
Expand Down Expand Up @@ -250,7 +250,7 @@

<!-- TPM2 = model: 010212 equal frequencies-->

<subtemplate id="Standard_TPM2" class="substmodels.nucleotide.JC" mainid="Standard_TPM2.s:$(n)"
<subtemplate id="Standard_TPM2 010212 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TPM2.s:$(n)"
suppressInputs="substmodels.nucleotide.TPM2.frequencies,
substmodels.nucleotide.TPM2.rates,
substmodels.nucleotide.TPM2.eigenSystem">
Expand All @@ -277,7 +277,7 @@

<!-- TPM2uf = model: 010212 unequal frequencies-->

<subtemplate id="Standard_TPM2uf" class="substmodels.nucleotide.JC" mainid="Standard_TPM2uf.s:$(n)"
<subtemplate id="Standard_TPM2uf 010212 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TPM2uf.s:$(n)"
suppressInputs="substmodels.nucleotide.TPM2uf.frequencies,
substmodels.nucleotide.TPM2uf.rates,
substmodels.nucleotide.TPM2uf.eigenSystem">
Expand Down Expand Up @@ -314,7 +314,7 @@

<!-- TPM3 = model: 012012 equal frequencies-->

<subtemplate id="Standard_TPM3" class="substmodels.nucleotide.JC" mainid="Standard_TPM3.s:$(n)"
<subtemplate id="Standard_TPM3 012012 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TPM3.s:$(n)"
suppressInputs="substmodels.nucleotide.TPM3.frequencies,
substmodels.nucleotide.TPM3.rates,
substmodels.nucleotide.TPM3.eigenSystem">
Expand All @@ -341,7 +341,7 @@

<!-- TPM3uf = model: 012012 unequal frequencies-->

<subtemplate id="Standard_TPM3uf" class="substmodels.nucleotide.JC" mainid="Standard_TPM3uf.s:$(n)"
<subtemplate id="Standard_TPM3uf 012012 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TPM3uf.s:$(n)"
suppressInputs="substmodels.nucleotide.TPM3uf.frequencies,
substmodels.nucleotide.TPM3uf.rates,
substmodels.nucleotide.TPM3uf.eigenSystem">
Expand Down Expand Up @@ -378,7 +378,7 @@

<!-- TIM1 = model: 012230 equal frequencies-->

<subtemplate id="Standard_TIM1" class="substmodels.nucleotide.JC" mainid="Standard_TIM1.s:$(n)"
<subtemplate id="Standard_TIM1 012230 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TIM1.s:$(n)"
suppressInputs="substmodels.nucleotide.TIM1.frequencies,
substmodels.nucleotide.TIM1.rates,
substmodels.nucleotide.TIM1.eigenSystem">
Expand All @@ -405,7 +405,7 @@

<!-- TIM1uf = model: 012230 unequal frequencies-->

<subtemplate id="Standard_TIM1uf" class="substmodels.nucleotide.JC" mainid="Standard_TIM1uf.s:$(n)"
<subtemplate id="Standard_TIM1uf 012230 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TIM1uf.s:$(n)"
suppressInputs="substmodels.nucleotide.TIM1uf.frequencies,
substmodels.nucleotide.TIM1uf.rates,
substmodels.nucleotide.TIM1uf.eigenSystem">
Expand Down Expand Up @@ -442,7 +442,7 @@

<!-- TIM2 = model: 010232 equal frequencies-->

<subtemplate id="Standard_TIM2" class="substmodels.nucleotide.JC" mainid="Standard_TIM2.s:$(n)"
<subtemplate id="Standard_TIM2 010232 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TIM2.s:$(n)"
suppressInputs="substmodels.nucleotide.TIM2.frequencies,
substmodels.nucleotide.TIM2.rates,
substmodels.nucleotide.TIM2.eigenSystem">
Expand All @@ -469,7 +469,7 @@

<!-- TIM2uf = model: 010232 unequal frequencies-->

<subtemplate id="Standard_TIM2uf" class="substmodels.nucleotide.JC" mainid="Standard_TIM2uf.s:$(n)"
<subtemplate id="Standard_TIM2uf 010232 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TIM2uf.s:$(n)"
suppressInputs="substmodels.nucleotide.TIM2uf.frequencies,
substmodels.nucleotide.TIM2uf.rates,
substmodels.nucleotide.TIM2uf.eigenSystem">
Expand Down Expand Up @@ -506,7 +506,7 @@

<!-- TIM3 = model: 012032 equal frequencies-->

<subtemplate id="Standard_TIM3" class="substmodels.nucleotide.JC" mainid="Standard_TIM3.s:$(n)"
<subtemplate id="Standard_TIM3 012032 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TIM3.s:$(n)"
suppressInputs="substmodels.nucleotide.TIM3.frequencies,
substmodels.nucleotide.TIM3.rates,
substmodels.nucleotide.TIM3.eigenSystem">
Expand All @@ -533,7 +533,7 @@

<!-- TIM3uf = model: 012032 unequal frequencies-->

<subtemplate id="Standard_TIM3uf" class="substmodels.nucleotide.JC" mainid="Standard_TIM3uf.s:$(n)"
<subtemplate id="Standard_TIM3uf 012032 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TIM3uf.s:$(n)"
suppressInputs="substmodels.nucleotide.TIM3uf.frequencies,
substmodels.nucleotide.TIM3uf.rates,
substmodels.nucleotide.TIM3uf.eigenSystem">
Expand Down Expand Up @@ -570,7 +570,7 @@

<!-- TVMef = model: 012314 equal frequencies-->

<subtemplate id="Standard_TVMef" class="substmodels.nucleotide.JC" mainid="Standard_TVMef.s:$(n)"
<subtemplate id="Standard_TVMef 012314 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TVMef.s:$(n)"
suppressInputs="substmodels.nucleotide.TVMef.frequencies,
substmodels.nucleotide.TVMef.rates,
substmodels.nucleotide.TVMef.eigenSystem">
Expand All @@ -597,7 +597,7 @@

<!-- TVM = model: 012314 unequal frequencies-->

<subtemplate id="Standard_TVM" class="substmodels.nucleotide.JC" mainid="Standard_TVM.s:$(n)"
<subtemplate id="Standard_TVM 012314 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_TVM.s:$(n)"
suppressInputs="substmodels.nucleotide.TVM.frequencies,
substmodels.nucleotide.TVM.rates,
substmodels.nucleotide.TVM.eigenSystem">
Expand Down Expand Up @@ -634,7 +634,7 @@

<!-- SYM = model: 012345 equal frequencies-->

<subtemplate id="Standard_SYM" class="substmodels.nucleotide.JC" mainid="Standard_SYM.s:$(n)"
<subtemplate id="Standard_SYM 012345 equal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_SYM.s:$(n)"
suppressInputs="substmodels.nucleotide.SYM.frequencies,
substmodels.nucleotide.SYM.rates,
substmodels.nucleotide.SYM.eigenSystem">
Expand All @@ -661,7 +661,7 @@

<!-- GTR = model: 012345 unequal frequencies-->

<subtemplate id="Standard_GTR" class="substmodels.nucleotide.JC" mainid="Standard_GTR.s:$(n)"
<subtemplate id="Standard_GTR 012345 unequal frequencies" class="substmodels.nucleotide.JC" mainid="Standard_GTR.s:$(n)"
suppressInputs="substmodels.nucleotide.GTR.frequencies,
substmodels.nucleotide.GTR.rates,
substmodels.nucleotide.GTR.eigenSystem">
Expand Down

0 comments on commit e873a89

Please sign in to comment.