[R/create_beast2_input_beast.R:28:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_beast.R#L28) *style:* **Lines should not be more than 80 characters.**
```r
    "namespace=\"beast.core:beast.evolution.alignment:beast.evolution.tree.coalescent:beast.core.util:beast.evolution.nuc:beast.evolution.operators:beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood\" ",
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_data.R:12:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_data.R#L12) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("id=\"", beastscriptr::get_file_base_sans_ext(input_fasta_filenames), "\""))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_data.R:14:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_data.R#L14) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, beastscriptr::create_beast2_input_data_sequences(input_fasta_filenames = input_fasta_filenames))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_data.R:22:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_data.R#L22) *style:* **Variable and function names should not be longer than 30 characters.**
```r
create_beast2_input_data_sequences <- function(
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:8:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L8) *style:* **Variable and function names should not be longer than 30 characters.**
```r
create_beast2_input_distribution <- function(
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:20:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L20) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"YuleModel.t:", ids, "\" spec=\"beast.evolution.speciation.YuleModel\" birthDiffRate=\"@birthRate.t:", ids, "\" tree=\"@Tree.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:21:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L21) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"YuleBirthRatePrior.t:", ids, "\" name=\"distribution\" x=\"@birthRate.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:22:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L22) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <Uniform id=\"Uniform.1\" name=\"distr\" upper=\"Infinity\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:25:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L25) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"BirthDeath.t:", ids, "\" spec=\"beast.evolution.speciation.BirthDeathGernhard08Model\" birthDiffRate=\"@BDBirthRate.t:", ids, "\" relativeDeathRate=\"@BDDeathRate.t:", ids, "\" tree=\"@Tree.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:26:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L26) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"BirthRatePrior.t:", ids, "\" name=\"distribution\" x=\"@BDBirthRate.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:27:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L27) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <Uniform id=\"Uniform.3\" name=\"distr\" upper=\"1000.0\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:29:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L29) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"DeathRatePrior.t:", ids, "\" name=\"distribution\" x=\"@BDDeathRate.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:30:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L30) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <Uniform id=\"Uniform.4\" name=\"distr\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:33:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L33) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"CoalescentConstant.t:", ids, "\" spec=\"Coalescent\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:34:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L34) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <populationModel id=\"ConstantPopulation.t:", ids, "\" spec=\"ConstantPopulation\" popSize=\"@popSize.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:47:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L47) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"BayesianSkyline.t:", ids, "\" spec=\"BayesianSkyline\" groupSizes=\"@bGroupSizes.t:", ids, "\" popSizes=\"@bPopSizes.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:48:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L48) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <treeIntervals id=\"BSPTreeIntervals.t:", ids, "\" spec=\"TreeIntervals\" tree=\"@Tree.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:50:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L50) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"MarkovChainedPopSizes.t:", ids, "\" spec=\"beast.math.distributions.MarkovChainDistribution\" jeffreys=\"true\" parameter=\"@bPopSizes.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:55:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L55) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"KappaPrior.s:", ids, "\" name=\"distribution\" x=\"@kappa.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:56:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L56) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <LogNormal id=\"LogNormalDistributionModel.0\" name=\"distr\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:57:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L57) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.1\" estimate=\"false\" name=\"M\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:58:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L58) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.2\" estimate=\"false\" name=\"S\">1.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:62:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L62) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"kappa1Prior.s:", ids, "\" name=\"distribution\" x=\"@kappa1.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:63:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L63) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <LogNormal id=\"LogNormalDistributionModel.1\" name=\"distr\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:64:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L64) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.3\" estimate=\"false\" name=\"M\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:65:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L65) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.4\" estimate=\"false\" name=\"S\">1.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:68:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L68) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"kappa2Prior.s:", ids, "\" name=\"distribution\" x=\"@kappa2.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:69:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L69) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <LogNormal id=\"LogNormalDistributionModel.2\" name=\"distr\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:70:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L70) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.5\" estimate=\"false\" name=\"M\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:71:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L71) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.6\" estimate=\"false\" name=\"S\">1.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:102:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L102) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <substModel id=\"JC69.s:", ids, "\" spec=\"JukesCantor\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:104:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L104) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <substModel id=\"hky.s:", ids, "\" spec=\"HKY\" kappa=\"@kappa.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:105:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L105) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                        <frequencies id=\"estimatedFreqs.s:", ids, "\" spec=\"Frequencies\" frequencies=\"@freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:108:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L108) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <substModel id=\"tn93.s:", ids, "\" spec=\"TN93\" kappa1=\"@kappa1.s:", ids, "\" kappa2=\"@kappa2.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:109:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_distribution.R#L109) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                        <frequencies id=\"estimatedFreqs.s:", ids, "\" spec=\"Frequencies\" frequencies=\"@freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:46:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_loggers.R#L46) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <log idref=\"BayesianSkyline.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:53:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_loggers.R#L53) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <log idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:57:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_loggers.R#L57) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <log idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:35:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L35) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"YuleBirthRateScaler.t:", ids, "\" spec=\"ScaleOperator\" parameter=\"@birthRate.t:", ids, "\" scaleFactor=\"0.75\" weight=\"3.0\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:40:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L40) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"", operator_id_pre, "TreeScaler.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:46:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L46) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"", operator_id_pre, "TreeRootScaler.t:",
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:52:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L52) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("    <operator id=\"", operator_id_pre, "UniformOperator.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:57:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L57) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"", operator_id_pre, "SubtreeSlide.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:63:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L63) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("    <operator id=\"", operator_id_pre, "Narrow.t:", ids, "\" spec=\"Exchange\" tree=\"@Tree.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:70:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L70) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("    <operator id=\"", operator_id_pre, "WilsonBalding.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:76:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L76) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"KappaScaler.s:", ids, "\" spec=\"ScaleOperator\" parameter=\"@kappa.s:", ids, "\" scaleFactor=\"0.5\" weight=\"0.1\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:78:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L78) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"FrequenciesExchanger.s:", ids, "\" spec=\"DeltaExchangeOperator\" delta=\"0.01\" weight=\"0.1\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:79:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L79) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:83:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L83) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"kappa1Scaler.s:", ids, "\" spec=\"ScaleOperator\" parameter=\"@kappa1.s:", ids, "\" scaleFactor=\"0.5\" weight=\"0.1\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:85:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L85) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"kappa2Scaler.s:", ids, "\" spec=\"ScaleOperator\" parameter=\"@kappa2.s:", ids, "\" scaleFactor=\"0.5\" weight=\"0.1\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:87:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L87) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"FrequenciesExchanger.s:", ids, "\" spec=\"DeltaExchangeOperator\" delta=\"0.01\" weight=\"0.1\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:88:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L88) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:109:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L109) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"popSizesScaler.t:", ids, "\" spec=\"ScaleOperator\" parameter=\"@bPopSizes.t:", ids, "\" scaleFactor=\"0.75\" weight=\"15.0\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:111:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L111) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"groupSizesDelta.t:", ids, "\" spec=\"DeltaExchangeOperator\" integer=\"true\" weight=\"6.0\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:112:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_operators.R#L112) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <intparameter idref=\"bGroupSizes.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:37:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L37) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"birthRate.t:", ids, "\" name=\"stateNode\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:39:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L39) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"BDBirthRate.t:", ids, "\" lower=\"0.0\" name=\"stateNode\" upper=\"10000.0\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:40:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L40) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"BDDeathRate.t:", ids, "\" lower=\"0.0\" name=\"stateNode\" upper=\"1.0\">0.5</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:42:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L42) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"popSize.t:", ids, "\" name=\"stateNode\">0.3</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:44:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L44) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"bPopSizes.t:", ids, "\" dimension=\"5\" lower=\"0.0\" name=\"stateNode\" upper=\"380000.0\">380.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:45:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L45) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <stateNode id=\"bGroupSizes.t:", ids, "\" spec=\"parameter.IntegerParameter\" dimension=\"5\">1</stateNode>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:48:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L48) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"kappa.s:", ids, "\" lower=\"0.0\" name=\"stateNode\">2.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:49:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L49) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"freqParameter.s:", ids, "\" dimension=\"4\" lower=\"0.0\" name=\"stateNode\" upper=\"1.0\">0.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:51:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L51) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"kappa1.s:", ids, "\" lower=\"0.0\" name=\"stateNode\">2.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:52:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L52) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"kappa2.s:", ids, "\" lower=\"0.0\" name=\"stateNode\">2.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:53:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/create_beast2_input_state.R#L53) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"freqParameter.s:", ids, "\" dimension=\"4\" lower=\"0.0\" name=\"stateNode\" upper=\"1.0\">0.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_cbs_tree_prior.R:2:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/is_cbs_tree_prior.R#L2) *style:* **Lines should not be more than 80 characters.**
```r
#' @param x an object, to be determined if it is a valid constant coalescent Bayesian skyline prior
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_cbs_tree_prior.R:3:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/is_cbs_tree_prior.R#L3) *style:* **Lines should not be more than 80 characters.**
```r
#' @return TRUE if x is a valid constant coalescent Bayesian skyline prior, FALSE otherwise
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_ccp_tree_prior.R:2:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/is_ccp_tree_prior.R#L2) *style:* **Lines should not be more than 80 characters.**
```r
#' @param x an object, to be determined if it is a valid constant coalescence population tree prior
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_ccp_tree_prior.R:3:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/R/is_ccp_tree_prior.R#L3) *style:* **Lines should not be more than 80 characters.**
```r
#' @return TRUE if x is a valid constant coalescence population tree prior, FALSE otherwise
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input_data.R:8:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input_data.R#L8) *style:* **Lines should not be more than 80 characters.**
```r
  expected <- "                    <sequence id=\"seq_t1\" taxon=\"t1\" totalcount=\"4\" value=\"acttgttgcgactgcgcctg\"/>"
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input_data.R:19:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input_data.R#L19) *style:* **Lines should not be more than 80 characters.**
```r
  expected <- "                    <sequence id=\"seq_t1\" taxon=\"t1\" totalcount=\"4\" value=\"acttgttgcgactgcgcctg\"/>"
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:51:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L51) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:68:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L68) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "birth_death_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:82:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L82) *style:* **Lines should not be more than 80 characters.**
```r
    tree_priors = beastscriptr::create_tree_prior(name = "coalescent_constant_population")
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:85:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L85) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "coalescent_constant_population_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:101:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L101) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "yule_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:114:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L114) *style:* **Lines should not be more than 80 characters.**
```r
    tree_priors = beastscriptr::create_tree_prior(name = "coalescent_bayesian_skyline")
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:117:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L117) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "coalescent_bayesian_skyline_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:128:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L128) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "jc69_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:139:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L139) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "hky_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:150:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L150) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "tn93_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:168:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L168) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "gtr_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:170:5:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L170) *style:* **Commented code should be removed.**
```r
  # write.csv(created_lines, "~/created.csv")
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:171:5:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L171) *style:* **Commented code should be removed.**
```r
  # write.csv(expected_lines, "~/expected.csv")
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:176:7:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-create_beast2_input.R#L176) *style:* **Commented code should be removed.**
```r
  #   print(paste0(i, " / ", length(expected_lines)))
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-is_yule_tree_prior.R:6:1:](https://github.com/richelbilderbeek/beastscriptr/blob/9b22a3d7f28c53ab0bcbd40c67f2c55ad6973305/tests/testthat/test-is_yule_tree_prior.R#L6) *style:* **Lines should not be more than 80 characters.**
```r
  testthat::expect_false(is_yule_tree_prior(create_tree_prior(name = "birth_death")))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```


Bluemix [toolchain](https://console.bluemix.net/devops/toolchains/dd1eda5f-ea15-4f78-8235-461f8ec39446 "archive-lab"): [Delivery Pipeline](https://console.bluemix.net/devops/pipelines/e743c5c0-3d7c-4c19-8f52-f4079e61eca0 "archive-lab") deployed [archive-lab](https://github.com/jesiels/archive-lab/releases/tag/deploy-ibm-yp-us-south-jesiels-br.ibm.com-dev-20171019-103632 "deploy-ibm-yp-us-south-jesiels-br.ibm.com-dev-20171019-103632") to [dev](https://console.bluemix.net/apps/84a12b9c-1782-48f7-8ad4-d10a22e6bea3?env_id=ibm:yp:us-south "ibm:yp:us-south:jesiels@br.ibm.com:dev"), including this commit


![](https://github.trello.services/images/mini-trello-icon.png) [[Core] Fix CSS gradient deprecation warnings](https://trello.com/c/sG5BBcHl/12243-core-fix-css-gradient-deprecation-warnings)


the downgrade was done because:
- 0.5.0 was never released and there was no reason to use fix version (last digit in X.X.X versioning) different than 0
 - I made it actually the same as in the readme update where 0.5.0 was described

If I could, I'd release this version as 0.5.0 but since it was yanked (there was no option to re-upload the same version), I cannot do it anymore.


Also, now when it matters, please note that `...` is left-associative...


This should probably have a `RunSQL` or `RunPython` migration step too to set `plugin_identifier`s for the "new" plugins based on `plugin_iframe_url` :)


What is this ? why did you remove the ZUTILSBRANCH ? I can see that the ZBRANCH in the curl command should be replaced with ZUTILSBRANCH, but you dont need to remove it and user master branch instead.
the JS9BRANCH is introduced later. ZUTILSBRANCH is used if you want to get the installation script from a specific branch.

Did you create a PR for this ?


I think this second test is not necessary because of the line above it.


Looks good :ok_hand:


It is a matter of taste, but sometimes I do:

```javascript
return contractSplitter.split(carol, bob, { from: alice, value: contribution })
    .then(txReceipt => assertSplitEvents(txReceipt, alice, carol, bob, contribution, partContribution, 0))
    .then(() => executeWithdrawAndCheckBalance(carol, partContribution))
    .then(txReceipt => executeWithdrawAndCheckBalance(bob, partContribution));
```


Resolve route issues


note that line 40 in parser.py breaks compitability with python 2


@silentcloud 测试挂了。


> Про ждать KD - это ты серьезно?
Ну, вдруг случится чудо) Ну если не вернётся - буду сам пытаться исправить, может придумаю что-нибудь.
> основываться на xp-dev перспективнее
Я остаюсь на своём мнении)
Там тоже дофига переделывать придётся, даже ещё больше наверное. Там даже нормального звука нет, например. Про рендер я вообще молчу. Тут KD хоть нормальную графику перенёс, и на том спасибо.
> не профессиональный программист
Я тоже. У меня вообще ещё профессии нету. И что ж теперь?


When you talk about local-local you are talking about the same machine or about lan network?

I use this script daily in production to sync 3 datacenters with 4TB data in different regions in the world since 5 years ago, it runs every 10 minutes.
I did the rework because I found the script unstable under heavy load, the script hung unexpectedly every few days. So I decide to retest again all protocols about performance and reliability.

My results was that for wan the best protocol is SSH with native compression and for lan MBUFFER.
In my tests MBUFFER works faster than netcat so I decide to keep only MBUFFER.

If you really need NETCAT I can take a look to include it again, but I need a good reason for this.

Regards


Pieter,

Indeed. I didn’t notice, as everything built locally and on the buildbots.

Fixed in https://git.io/vd7PS

> On Oct 19, 2017, at 4:43 AM, Pieter Hoste <notifications@github.com> wrote:
>
> @Schamschula <https://github.com/schamschula>: is it possible that you forgot to rename the second {confDir} variable on this line?
> We are getting this error while trying to install apache2:
>
> ...
> --->  Extracting apache2
> --->  Applying patches to apache2
> --->  Configuring apache2
> --->  Building apache2
> --->  Staging apache2 into destroot
> --->  Creating launchd control script
> ###########################################################
> # A startup item has been generated that will aid in
> # starting apache2 with launchd. It is disabled
> # by default. Execute the following command to start it,
> # and to cause it to launch at startup:
> #
> # sudo port load apache2
> ###########################################################
> --->  Installing apache2 @2.4.28_1+eventmpm
> --->  Activating apache2 @2.4.28_1+eventmpm
> Error: Failed to activate apache2: can't read "confDir": no such variable
> Error: See /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_www_apache2/apache2/main.log for details.
> Error: Follow https://guide.macports.org/#project.tickets to report a bug.
> Error: Processing of port apache2 failed
> Thanks!
>
> —
> You are receiving this because you authored the thread.
> Reply to this email directly, view it on GitHub <https://github.com/macports/macports-ports/commit/d5d250ba8bebb8a48ea2efb45e82d98eefafa0a9#commitcomment-25073519>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AMxgiqgkaYbtLA19A4EfZ2X10OFYtEhNks5stxm-gaJpZM4P-9ps>.
>

Marius
--
Marius Schamschula


ok. update confirm


it's unhealthy Ahmed!


Egon, I´d recommend changing it to only MWCNT-7. Remove Mitsui!
Otherwise great work!


重新提交


Does it mean, that the new behavior by default requires adding `--workspace-pool-size` parameter to enable pool?


Bluemix [toolchain](https://console.bluemix.net/devops/toolchains/73511828-153e-4116-982d-cd7af20ed76d "HULUpload"): [Delivery Pipeline](https://console.bluemix.net/devops/pipelines/790ac3cd-a474-4b62-92f0-a8d134917190 "HULUploads") deployed [HULUpload](https://github.com/tinusm/HULUpload/releases/tag/deploy-ibm-yp-us-south-TEAM17040311301800949-cloudnative-dev-20171019-105332 "deploy-ibm-yp-us-south-TEAM17040311301800949-cloudnative-dev-20171019-105332") to [cloudnative-dev](https://console.bluemix.net/apps/fe4ed76f-15d6-45ae-b390-3bc19e83ee67?env_id=ibm:yp:us-south "ibm:yp:us-south:TEAM17040311301800949:cloudnative-dev"), including this commit


Насчёт слотов - ну тут кому как нравится. Мне вот достаточно того, как тут сделано, в ЗП так же вроде.
Только допилить надо чтоб драг-дроп работал и тд.


Sure


It means you have execute snippet outside the mean.


I suggest adding comment if empty case code is intentional


I should have written tests for ColumnsPost anyway mb


@riuvshin @musienko-maxim  why do you need that?


There is missing a condition that checks if `ImageList` already contains an icon for the extension.


今日头条图片下载


It is important to optimize this method for it is called many times on expanding. Therefore I suggest to not combine the workingdir with filename if not needed (do it lazily in iconProvider)


Dependencies for the jdt.ls extension are determined by what jdt.ls uses, not by what Che uses, so enforcing Che dependency rules makes no sense for this module.


[R/create_beast2_input_beast.R:28:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_beast.R#L28) *style:* **Lines should not be more than 80 characters.**
```r
    "namespace=\"beast.core:beast.evolution.alignment:beast.evolution.tree.coalescent:beast.core.util:beast.evolution.nuc:beast.evolution.operators:beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood\" ",
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_data.R:12:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_data.R#L12) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("id=\"", beastscriptr::get_file_base_sans_ext(input_fasta_filenames), "\""))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_data.R:14:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_data.R#L14) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, beastscriptr::create_beast2_input_data_sequences(input_fasta_filenames = input_fasta_filenames))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_data.R:22:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_data.R#L22) *style:* **Variable and function names should not be longer than 30 characters.**
```r
create_beast2_input_data_sequences <- function(
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:8:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L8) *style:* **Variable and function names should not be longer than 30 characters.**
```r
create_beast2_input_distribution <- function(
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:20:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L20) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"YuleModel.t:", ids, "\" spec=\"beast.evolution.speciation.YuleModel\" birthDiffRate=\"@birthRate.t:", ids, "\" tree=\"@Tree.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:21:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L21) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"YuleBirthRatePrior.t:", ids, "\" name=\"distribution\" x=\"@birthRate.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:22:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L22) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <Uniform id=\"Uniform.1\" name=\"distr\" upper=\"Infinity\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:25:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L25) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"BirthDeath.t:", ids, "\" spec=\"beast.evolution.speciation.BirthDeathGernhard08Model\" birthDiffRate=\"@BDBirthRate.t:", ids, "\" relativeDeathRate=\"@BDDeathRate.t:", ids, "\" tree=\"@Tree.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:26:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L26) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"BirthRatePrior.t:", ids, "\" name=\"distribution\" x=\"@BDBirthRate.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:27:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L27) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <Uniform id=\"Uniform.3\" name=\"distr\" upper=\"1000.0\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:29:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L29) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"DeathRatePrior.t:", ids, "\" name=\"distribution\" x=\"@BDDeathRate.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:30:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L30) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <Uniform id=\"Uniform.4\" name=\"distr\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:33:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L33) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"CoalescentConstant.t:", ids, "\" spec=\"Coalescent\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:34:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L34) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <populationModel id=\"ConstantPopulation.t:", ids, "\" spec=\"ConstantPopulation\" popSize=\"@popSize.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:47:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L47) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"BayesianSkyline.t:", ids, "\" spec=\"BayesianSkyline\" groupSizes=\"@bGroupSizes.t:", ids, "\" popSizes=\"@bPopSizes.t:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:48:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L48) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <treeIntervals id=\"BSPTreeIntervals.t:", ids, "\" spec=\"TreeIntervals\" tree=\"@Tree.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:50:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L50) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <distribution id=\"MarkovChainedPopSizes.t:", ids, "\" spec=\"beast.math.distributions.MarkovChainDistribution\" jeffreys=\"true\" parameter=\"@bPopSizes.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:55:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L55) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"KappaPrior.s:", ids, "\" name=\"distribution\" x=\"@kappa.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:56:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L56) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <LogNormal id=\"LogNormalDistributionModel.0\" name=\"distr\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:57:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L57) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.1\" estimate=\"false\" name=\"M\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:58:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L58) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.2\" estimate=\"false\" name=\"S\">1.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:62:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L62) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"kappa1Prior.s:", ids, "\" name=\"distribution\" x=\"@kappa1.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:63:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L63) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <LogNormal id=\"LogNormalDistributionModel.1\" name=\"distr\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:64:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L64) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.3\" estimate=\"false\" name=\"M\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:65:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L65) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.4\" estimate=\"false\" name=\"S\">1.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:68:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L68) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("            <prior id=\"kappa2Prior.s:", ids, "\" name=\"distribution\" x=\"@kappa2.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:69:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L69) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                <LogNormal id=\"LogNormalDistributionModel.2\" name=\"distr\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:70:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L70) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.5\" estimate=\"false\" name=\"M\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:71:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L71) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <parameter id=\"RealParameter.6\" estimate=\"false\" name=\"S\">1.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:102:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L102) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <substModel id=\"JC69.s:", ids, "\" spec=\"JukesCantor\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:104:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L104) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <substModel id=\"hky.s:", ids, "\" spec=\"HKY\" kappa=\"@kappa.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:105:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L105) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                        <frequencies id=\"estimatedFreqs.s:", ids, "\" spec=\"Frequencies\" frequencies=\"@freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:108:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L108) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                    <substModel id=\"tn93.s:", ids, "\" spec=\"TN93\" kappa1=\"@kappa1.s:", ids, "\" kappa2=\"@kappa2.s:", ids, "\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distribution.R:109:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_distribution.R#L109) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("                        <frequencies id=\"estimatedFreqs.s:", ids, "\" spec=\"Frequencies\" frequencies=\"@freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:46:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_loggers.R#L46) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <log idref=\"BayesianSkyline.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:53:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_loggers.R#L53) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <log idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:57:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_loggers.R#L57) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <log idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:35:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L35) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"YuleBirthRateScaler.t:", ids, "\" spec=\"ScaleOperator\" parameter=\"@birthRate.t:", ids, "\" scaleFactor=\"0.75\" weight=\"3.0\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:40:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L40) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"", operator_id_pre, "TreeScaler.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:46:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L46) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"", operator_id_pre, "TreeRootScaler.t:",
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:52:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L52) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("    <operator id=\"", operator_id_pre, "UniformOperator.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:57:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L57) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"", operator_id_pre, "SubtreeSlide.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:63:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L63) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("    <operator id=\"", operator_id_pre, "Narrow.t:", ids, "\" spec=\"Exchange\" tree=\"@Tree.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:70:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L70) *style:* **Lines should not be more than 80 characters.**
```r
  text <- c(text, paste0("    <operator id=\"", operator_id_pre, "WilsonBalding.t:", ids,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:76:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L76) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"KappaScaler.s:", ids, "\" spec=\"ScaleOperator\" parameter=\"@kappa.s:", ids, "\" scaleFactor=\"0.5\" weight=\"0.1\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:78:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L78) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"FrequenciesExchanger.s:", ids, "\" spec=\"DeltaExchangeOperator\" delta=\"0.01\" weight=\"0.1\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:79:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L79) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:83:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L83) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"kappa1Scaler.s:", ids, "\" spec=\"ScaleOperator\" parameter=\"@kappa1.s:", ids, "\" scaleFactor=\"0.5\" weight=\"0.1\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:85:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L85) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"kappa2Scaler.s:", ids, "\" spec=\"ScaleOperator\" parameter=\"@kappa2.s:", ids, "\" scaleFactor=\"0.5\" weight=\"0.1\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:87:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L87) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"FrequenciesExchanger.s:", ids, "\" spec=\"DeltaExchangeOperator\" delta=\"0.01\" weight=\"0.1\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:88:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L88) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter idref=\"freqParameter.s:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:109:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L109) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"popSizesScaler.t:", ids, "\" spec=\"ScaleOperator\" parameter=\"@bPopSizes.t:", ids, "\" scaleFactor=\"0.75\" weight=\"15.0\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:111:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L111) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("    <operator id=\"groupSizesDelta.t:", ids, "\" spec=\"DeltaExchangeOperator\" integer=\"true\" weight=\"6.0\">"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:112:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_operators.R#L112) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <intparameter idref=\"bGroupSizes.t:", ids, "\"/>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:37:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L37) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"birthRate.t:", ids, "\" name=\"stateNode\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:39:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L39) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"BDBirthRate.t:", ids, "\" lower=\"0.0\" name=\"stateNode\" upper=\"10000.0\">1.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:40:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L40) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"BDDeathRate.t:", ids, "\" lower=\"0.0\" name=\"stateNode\" upper=\"1.0\">0.5</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:42:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L42) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"popSize.t:", ids, "\" name=\"stateNode\">0.3</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:44:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L44) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"bPopSizes.t:", ids, "\" dimension=\"5\" lower=\"0.0\" name=\"stateNode\" upper=\"380000.0\">380.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:45:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L45) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <stateNode id=\"bGroupSizes.t:", ids, "\" spec=\"parameter.IntegerParameter\" dimension=\"5\">1</stateNode>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:48:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L48) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"kappa.s:", ids, "\" lower=\"0.0\" name=\"stateNode\">2.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:49:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L49) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"freqParameter.s:", ids, "\" dimension=\"4\" lower=\"0.0\" name=\"stateNode\" upper=\"1.0\">0.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:51:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L51) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"kappa1.s:", ids, "\" lower=\"0.0\" name=\"stateNode\">2.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:52:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L52) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"kappa2.s:", ids, "\" lower=\"0.0\" name=\"stateNode\">2.0</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:53:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/create_beast2_input_state.R#L53) *style:* **Lines should not be more than 80 characters.**
```r
    text <- c(text, paste0("        <parameter id=\"freqParameter.s:", ids, "\" dimension=\"4\" lower=\"0.0\" name=\"stateNode\" upper=\"1.0\">0.25</parameter>"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_cbs_tree_prior.R:2:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/is_cbs_tree_prior.R#L2) *style:* **Lines should not be more than 80 characters.**
```r
#' @param x an object, to be determined if it is a valid constant coalescent Bayesian skyline prior
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_cbs_tree_prior.R:3:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/is_cbs_tree_prior.R#L3) *style:* **Lines should not be more than 80 characters.**
```r
#' @return TRUE if x is a valid constant coalescent Bayesian skyline prior, FALSE otherwise
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_ccp_tree_prior.R:2:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/is_ccp_tree_prior.R#L2) *style:* **Lines should not be more than 80 characters.**
```r
#' @param x an object, to be determined if it is a valid constant coalescence population tree prior
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/is_ccp_tree_prior.R:3:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/R/is_ccp_tree_prior.R#L3) *style:* **Lines should not be more than 80 characters.**
```r
#' @return TRUE if x is a valid constant coalescence population tree prior, FALSE otherwise
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input_data.R:8:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input_data.R#L8) *style:* **Lines should not be more than 80 characters.**
```r
  expected <- "                    <sequence id=\"seq_t1\" taxon=\"t1\" totalcount=\"4\" value=\"acttgttgcgactgcgcctg\"/>"
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input_data.R:19:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input_data.R#L19) *style:* **Lines should not be more than 80 characters.**
```r
  expected <- "                    <sequence id=\"seq_t1\" taxon=\"t1\" totalcount=\"4\" value=\"acttgttgcgactgcgcctg\"/>"
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:51:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L51) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:68:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L68) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "birth_death_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:82:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L82) *style:* **Lines should not be more than 80 characters.**
```r
    tree_priors = beastscriptr::create_tree_prior(name = "coalescent_constant_population")
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:85:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L85) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "coalescent_constant_population_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:101:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L101) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "yule_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:114:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L114) *style:* **Lines should not be more than 80 characters.**
```r
    tree_priors = beastscriptr::create_tree_prior(name = "coalescent_bayesian_skyline")
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:117:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L117) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "coalescent_bayesian_skyline_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:128:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L128) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "jc69_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:139:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L139) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "hky_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:150:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L150) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "tn93_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-create_beast2_input.R:163:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-create_beast2_input.R#L163) *style:* **Lines should not be more than 80 characters.**
```r
  expected_lines <- readLines(system.file("extdata", "gtr_2_4.xml", package = "beastscriptr"))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-is_yule_tree_prior.R:6:1:](https://github.com/richelbilderbeek/beastscriptr/blob/46d7e5d9888ae801220c005a3c15282b32157e0e/tests/testthat/test-is_yule_tree_prior.R#L6) *style:* **Lines should not be more than 80 characters.**
```r
  testthat::expect_false(is_yule_tree_prior(create_tree_prior(name = "birth_death")))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```


No value should lead to the previous behavior where pool size is calculated. If somebody needs to disable pool he will set `--workspace-pool-size=0`


`0.5.0 was never released`? You mean `0.5.1 was never released`?
So isn't that the reason to not change the version? Since we already released 0.5.0 I don't think we should downgrade to it after the fact. We are not going to run out of numbers, and the version don't have follow one after another. The next one can be `0.5.10` if we want to.

Also I think we should update the readme to match the version not the other way around;)


This commit starts the strategy of using Laghos solver, i.e. Mv dvdt = -Fv*I, Me dtempdt = Ftemp^T*v.
In the case of M1, it is reformulated as Me dI0dv = Ftemp^T*I1 + S, Mv dI1dt = -Fv*I0,
and the latter problem is solved on v in (vmax, vmin) on a given hydro mesh. Currently, the source S is zero and M1 solves a homogeneous solution I0 = 1, I1 = 0 (consistent with BCs), for Sedov runs 2D/3D.
It is important to realize, that in the case of Sedov 3D, M1 represents a 7D problem (time+3*space+3*velocity).


Fixed in https://github.com/macports/macports-ports/commit/62b65b60adee5678cdf61cde0d622a9ce2cc02c3


oops


space in front