[R/ABC_SMC.R:11:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L11) *style:* **Lines should not be more than 80 characters.**
```r
# @param    current                 vector       Current parameter combination for which we are determining the weight
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:12:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L12) *style:* **Lines should not be more than 80 characters.**
```r
# @param    sigma                   scalar       standard deviation of the perturbation
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:13:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L13) *style:* **Lines should not be more than 80 characters.**
```r
# @param    prior_density_function  function     Function to calculate the prior probability of a set of parameters
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:36:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L36) *style:* **Lines should not be more than 80 characters.**
```r
# @brief apply the ABC routine used in our Methods in Ecology and Evolution Paper
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:43:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L43) *style:* **Lines should not be more than 80 characters.**
```r
# @param    statistics                    vector      A vector containing functions that take a tree as an argument and return a single scalar value (the statistic).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:44:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L44) *style:* **Lines should not be more than 80 characters.**
```r
# @param    simulation_function           vector      A function that implements the diversification model and returns an object of class phylo
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:45:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L45) *style:* **Lines should not be more than 80 characters.**
```r
# @param    init_epsilon_values           vector      A vector containing the initial threshold values for the summary statistics from the vector statistics.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:46:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L46) *style:* **Lines should not be more than 80 characters.**
```r
# @param    prior_generating_function     function    Function to generate parameters from the prior distribution of these parameters (e.g. a function returning lambda and mu in case of the birth-death model)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:47:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L47) *style:* **Lines should not be more than 80 characters.**
```r
# @param    prior_density_function        function    Function to calculate the prior probability of a set of parameters (should match prior_generating_function in shape)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:48:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L48) *style:* **Lines should not be more than 80 characters.**
```r
# @param    number_of_particles           scalar      Number of particles to be used per iteration of the ABC-SMC algorithm.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:49:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L49) *style:* **Lines should not be more than 80 characters.**
```r
# @param    sigma                         scalar      Standard deviation of the perturbance distribution (perturbance distribution is a gaussian with mean 0).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:50:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L50) *style:* **Lines should not be more than 80 characters.**
```r
# @param    stop_rate                     scalar      If the acceptance rate drops below \code{stopRate}, stop the ABC-SMC algorithm  and assume convergence.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:51:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L51) *style:* **Lines should not be more than 80 characters.**
```r
# @return                                 matrix      A matrix with n columns, where n is the number of parameters you are trying to estimate.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:75:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L75) *style:* **Lines should not be more than 80 characters.**
```r
#'   from the prior distribution of these parameters (e.g. a function returning lambda and mu in case of the birth-death model)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:126:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L126) *style:* **functions should have cyclomatic complexity of less than 15, this has 42.**
```r
abc_smc_nltt <- function(tree,
^
```
[R/ABC_SMC.R:276:13:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L276) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
        if ( (number_accepted / tried) < stop_rate) {
            ^
```
[R/ABC_SMC.R:301:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L301) *style:* **Lines should not be more than 80 characters.**
```r
# @brief Estimate the likelihood of a given tree, provided a likelihood function, using a Monte Carlo Markov Chain
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:308:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L308) *style:* **Lines should not be more than 80 characters.**
```r
# @param    likelihood_function   function    Function that calculates the likelihood of our diversification model, given the tree.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:309:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L309) *style:* **Lines should not be more than 80 characters.**
```r
#                                             function should be of the format function(parameters, phy).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:310:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L310) *style:* **Lines should not be more than 80 characters.**
```r
# @param    parameters            vector      Initial parameters to start the chain.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:311:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L311) *style:* **Lines should not be more than 80 characters.**
```r
# @param    logtransforms         scalar      Whether to perform jumps on logtransformed parameters (TRUE) or not (FALSE)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:313:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L313) *style:* **Lines should not be more than 80 characters.**
```r
# @param    burnin                scalar      Length of the burnin, default is 30% of iterations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:315:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L315) *style:* **Lines should not be more than 80 characters.**
```r
# @param    sigma                 scalar      Standard deviation of the jumping distribution, which is N(0, sigma).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:316:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L316) *style:* **Lines should not be more than 80 characters.**
```r
# @return                         mcmc        An MCMC object, as used by the package "coda".
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:320:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L320) *style:* **functions should have cyclomatic complexity of less than 15, this has 34.**
```r
mcmc_nltt <- function(phy, likelihood_function,
^
```
[R/get_average_nltt_matrix.R:14:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/get_average_nltt_matrix.R#L14) *style:* **functions should have cyclomatic complexity of less than 15, this has 16.**
```r
get_average_nltt_matrix <- function(
^
```
[R/get_n_lineages.R:17:12:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/get_n_lineages.R#L17) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
    return(1:length(phylogeny$tip.label))
           ^
```
[R/get_norm_brts.R:22:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/get_norm_brts.R#L22) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nltt_diff_exact_extinct.R:47:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L47) *style:* **functions should have cyclomatic complexity of less than 15, this has 23.**
```r
nltt_diff_exact_extinct <- function(
^
```
[R/nltt_diff_exact_extinct.R:70:27:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L70) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "since"){
                          ^~
```
[R/nltt_diff_exact_extinct.R:77:25:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L77) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "ago"){
                        ^~
```
[R/nltt_diff_exact_extinct.R:102:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L102) *style:* **Lines should not be more than 80 characters.**
```r
    species_number_n <- species_number / max(species_number)  #normalize lineages
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:107:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L107) *style:* **Lines should not be more than 80 characters.**
```r
    event_times2_n <- 1 - event_times2 / min(event_times2) #normalize branching times
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:108:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L108) *style:* **Lines should not be more than 80 characters.**
```r
    species_number2_n <- species_number2 / max(species_number2)  #normalize lineages
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:175:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L175) *style:* **Commented code should be removed.**
```r
  # testit::assert(event_times[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:176:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L176) *style:* **Commented code should be removed.**
```r
  # testit::assert(species_number[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:177:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L177) *style:* **Commented code should be removed.**
```r
  # testit::assert(event_times2[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:178:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L178) *style:* **Commented code should be removed.**
```r
  # testit::assert(species_number[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:180:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L180) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(event_times >= 0.0 & event_times <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:181:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L181) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(species_number >= 0.0 & species_number <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:182:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L182) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(event_times2 >= 0.0 & event_times2 <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:183:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L183) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(species_number >= 0.0 & species_number <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:222:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L222) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nltt_diff_exact_extinct.R:223:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L223) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nltt_diff_exact_extinct.R:224:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L224) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nLTTDiff.R:59:27:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L59) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "since"){
                          ^~
```
[R/nLTTDiff.R:66:25:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L66) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "ago"){
                        ^~
```
[R/nLTTDiff.R:186:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L186) *style:* **Lines should not be more than 80 characters.**
```r
#' Calculates the exact difference between the lineage through time curves of tree1 & tree2 (normalized in time and for the number of lineages)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:274:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L274) *style:* **Lines should not be more than 80 characters.**
```r
# @param    distance_method        string     Method to calculate the difference, either absolute, or squared
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:275:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L275) *style:* **Lines should not be more than 80 characters.**
```r
# @return                          scalar     normalized Lineage-Through-Time difference between tree1 & tree2
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:283:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L283) *style:* **Lines should not be more than 80 characters.**
```r
#' @usage nLTTstat(tree1, tree2, distance_method = "abs", ignore_stem = TRUE, log_transform = FALSE)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:344:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L344) *style:* **Lines should not be more than 80 characters.**
```r
# @param    distance_method        string     Method to calculate the difference, either absolute, or squared
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:345:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L345) *style:* **Lines should not be more than 80 characters.**
```r
# @param    ignore_stem            logical    Should the phylogeny its stem be ignored?
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:346:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L346) *style:* **Lines should not be more than 80 characters.**
```r
# @return                          scalar     normalized Lineage-Through-Time difference between tree1 & tree2
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltts_plot.R:19:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltts_plot.R#L19) *style:* **functions should have cyclomatic complexity of less than 15, this has 17.**
```r
nltts_plot <- function(
^
```
[R/plot_nLTT.R:36:23:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L36) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
nltt_plot <- function( phy, xlab = "Normalized Time",
                      ^
```
[R/plot_nLTT.R:51:28:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L51) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] + abs( min( xy[, 1])) #make sure time runs from 0..T
                           ^
```
[R/plot_nLTT.R:51:33:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L51) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] + abs( min( xy[, 1])) #make sure time runs from 0..T
                                ^
```
[R/plot_nLTT.R:52:28:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L52) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] / max( xy[, 1])      #normalize time
                           ^
```
[R/plot_nLTT.R:94:32:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L94) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] + abs(min( xy[, 1])) #make sure time runs from 0..T
                               ^
```
[R/stretch_nltt_matrix.R:22:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/stretch_nltt_matrix.R#L22) *style:* **functions should have cyclomatic complexity of less than 15, this has 16.**
```r
stretch_nltt_matrix <- function(
^
```
[tests/testthat/test-abc_smc_nltt.R:30:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L30) *style:* **Commented code should be removed.**
```r
  # suppressWarnings(RNGversion("3.5.0"))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-abc_smc_nltt.R:35:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L35) *style:* **Variable and function name style should be snake_case.**
```r
  LL_BD <- function(params, phy) {
  ^~~~~
```
[tests/testthat/test-abc_smc_nltt.R:49:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L49) *style:* **Variable and function name style should be snake_case.**
```r
  ML <- stats::optimize(f = tofit, interval = c(0, 1))
  ^~
```
[tests/testthat/test-abc_smc_nltt.R:55:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L55) *style:* **Variable and function name style should be snake_case.**
```r
  A <- abc_smc_nltt(
  ^
```
[tests/testthat/test-get_average_nltt.R:10:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-get_average_nltt.R#L10) *style:* **Commented code should be removed.**
```r
  # suppressWarnings(RNGversion("3.5.0"))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-get_average_nltt.R:41:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-get_average_nltt.R#L41) *style:* **Commented code should be removed.**
```r
  # suppressWarnings(RNGversion("3.5.0"))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-mcmc_nltt.R:14:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-mcmc_nltt.R#L14) *style:* **Variable and function name style should be snake_case.**
```r
  LL_BD <- function(params, phy) {
  ^~~~~
```
[tests/testthat/test-mcmc_nltt.R:31:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-mcmc_nltt.R#L31) *style:* **Variable and function name style should be snake_case.**
```r
  ML <- optim(par = c(1, 0.001), fn = tofit)
  ^~
```
[tests/testthat/test-mcmc_nltt.R:58:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-mcmc_nltt.R#L58) *style:* **Variable and function name style should be snake_case.**
```r
  LL_BD <- function(params, phy) {
  ^~~~~
```
[tests/testthat/test-nltt_diff_exact_brts.R:40:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_brts.R#L40) *style:* **Lines should not be more than 80 characters.**
```r
    regexp = "branching times must be negative, for example -3 time units since the present"
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-nltt_diff_exact_brts.R:66:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_brts.R#L66) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:29:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L29) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages1 <- 1:length(event_times)
               ^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:30:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L30) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages2 <- 1:length(event_times2)
               ^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:95:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L95) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages1 <- 1:length(event_times)
               ^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:96:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L96) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages2 <- 1:length(event_times2)
               ^
```


Error while trying to register: "Tag with name `0.6.1` already exists and points to a different commit"


@xvwyh There is no way you had zero impact from increasing searcher sizes of the visibility notifiers, at least not with stock tc or anything even remotely close to TC's visibility handling. You would be doing hashmap lookups, among other conditional checks for thousands of objects, that is not a free nor cheap operation what so ever.

Option #2 is what I opted for, and yes, while it's technically incorrect (there's some examples of this where you could see some large NPCs in Icecrown from Dalaran), it's the easiest to implement by far and still remains performant if not abused.


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input.toString decat toString.call


Sure about the number? BTW I think all numbers should be omitted, they are sequential.


Deployment failed with the following error:

~~~
You defined 1 build that did not match any source files (please ensure they are NOT defined in .nowignore):
~~~


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@JuliaRegistrator register()


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Registration pull request created: [JuliaRegistries/General/8561](https://github.com/JuliaRegistries/General/pull/8561)

After the above pull request is merged, it is recommended that a tag is created on this repository for the registered package version.

This will be done automatically if [Julia TagBot](https://github.com/apps/julia-tagbot) is installed, or can be done manually through the github interface, or via:
```
git tag -a v0.6.2 -m "<description of version>" ccaf9fe69550c19a7afe99e7c0028ddb7f817df8
git push origin v0.6.2
```


你的第一个问题在 Roice 的论文中有部分回答，见 https://github.com/roice3/Honeycombs
简单说一个铺砌是双曲的、欧式的、有限的，可以通过其 Cartan 矩阵的惯性指数来判断。

我不太理解你指的 "如何剖分庞加莱球" 是什么意思，如果指的是求出铺砌中每个顶点坐标、边/面/胞腔的下标，那么这个项目已经做了这些。
不过我在渲染的时候发现对上百万个顶点的场景计算所有精确信息非常费时间，所以后来的提交里面改成了浮点数比较胞腔中心去重的方法。
之前的 commit 里面是把每个顶点、边、面、胞腔对应的群元素都计算了的。

不管是欧式、球面还是双曲铺砌，它们都可以通过在高一维的空间里面用一个超曲面去截对应 Coxeter 群的 Tit's cone 得到。欧式的情形这个超曲面是平面 z=c，球面的情形这个超曲面是单位球面，双曲的情形这个超曲面是 hyperboloid. 这个就是这个程序采取的处理方式，见 Gunnels 的论文 https://people.math.umass.edu/~gunnells/pubs/cells/cells.pdf
简单说，就是二维铺砌的基本区域可以通过在三维欧式空间里面摆放三个反射平面，用通常的线性变换来计算，然后投影到二维。
Casselman 的讲义 http://www.math.ubc.ca/~cass/ 也是不错的参考资料。

"看了你的文章才知道，这些顶点的计算并不简单，编程实现的话，很费心血"。
其实对于非星状多面体的话，顶点和边面的计算很简单，编程实现的话也很容易，网上这样的代码比比皆是，难点在于怎样在不使用浮点数精度比较的前提下，优雅精确地计算。这个项目里面提供了两种方法：Todd-Coxeter 算法和 Coxeter 自动机。这两个方法确实比较 "麻烦"，但是从审美上讲它们更优雅，而且可以处理星状的情形，也可以很容易处理各种其它维数、snub 的情形。

我不太清楚你想要什么格式的数据文件? 实际上只要运行例子中的代码
https://github.com/neozhaoliang/pywonderland/blob/master/src/polytopes/run_4d_rotation_animation.py
就会在 `povray` 目录下生成一个 polytope-data.inc 的文件，这个文件里面包含了多胞体的所有数据，你可以查看这个文件来获得数据。这个脚本的 main 函数里面包含了各种各样的多胞体的例子。不过这个输出的格式是 povray 专用的，未必适用于你使用的渲染器。


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Yes good catch, I've added it to 9.2 and 9.3


upper cammel case is reserved for classes, so in this case, you would most likely want to just name it bottools, or refactor it into a package and name it BotTools


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bad organisation skills


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This merge adds the improved README of master to dev.


Deployment failed with the following error:

~~~
The `env` property in now.json needs to be an object
~~~


i'd remove isAmountDiscount and dueDate and replace with whereAmount and whereBalance


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rio


e


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our vision is to establish a green and healthy environment and provide the sources of education to them who are not capable to have it

our mission is to start a campaign that can create awarenes among the society regarding the bad aspects of plastic, illitracy and deforestation


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Perhaps every verb here is 'will'?


@oblonski hello, why you made this class deprecated? What we can use in spite of this?


add git ignore files


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when lavender-q-oss?


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You can install this pre-release platform-specific build using instructions at [https://on.cypress.io/installing-cypress#Install-pre-release-version](https://on.cypress.io/installing-cypress#Install-pre-release-version).

You will need to use custom `CYPRESS_INSTALL_BINARY` url and install Cypress using an url instead of the version.

    set CYPRESS_INSTALL_BINARY=https://cdn.cypress.io/beta/binary/3.8.4/win32-x64/appveyor-develop-9a6597ffe85aa83b1cea2171e1b3774c836222be-30388911/cypress.zip
    npm install https://cdn.cypress.io/beta/binary/3.8.4/win32-x64/appveyor-develop-9a6597ffe85aa83b1cea2171e1b3774c836222be-30388911/cypress.zip


Hi! Is it worked?
Can you say how to build?
What blobs will I get?


How about also putting the link in the subsection under `## Advanced configurable rules`?


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Dear @mote166,
> I regret to inform you that your plugin "**PlayerSkinStealer**" (v1.0.0 submitted on 2020-01-27T18:49:57.000Z) has been rejected.

B3 — No useless messages in startup/shutdown:
> Plugins must not output unnecessary status messages like "I have been enabled", "Author: Xxx", etc., unless the plugin startup/shutdown takes really much time (more than 1 second) such that the user may become impatient. See https://forums.pmmp.io/threads/clean-up-our-consoles.5656/

Please resolve these issues and submit the plugin again.

> This comment is posted here because this is the last commit when the released build was created.


[AppVeyor has built](https://ci.appveyor.com/project/cypress-io/cypress/builds/30388911/job/tcy9y7wh9w6f439u) the `win32 ia32` version of the Test Runner.

You can install this pre-release platform-specific build using instructions at [https://on.cypress.io/installing-cypress#Install-pre-release-version](https://on.cypress.io/installing-cypress#Install-pre-release-version).

You will need to use custom `CYPRESS_INSTALL_BINARY` url and install Cypress using an url instead of the version.

    set CYPRESS_INSTALL_BINARY=https://cdn.cypress.io/beta/binary/3.8.4/win32-ia32/appveyor-develop-9a6597ffe85aa83b1cea2171e1b3774c836222be-30388911/cypress.zip
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All Rules (3 / 3) Passed

      :crown: Good job! this pull request is aligned with your organization's best practices!

      :point_right: You can review your rules settings at smart policy management :point_left:

:point_right: click here to view a full list of the events :point_left:


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рискованно использовать latest
best practice использовать exact версию, без `^`


tsete


I think this commit should have been named:
Sneaking Past the Sample Test, by Clau


Consider returning a different value based on the issue. In this situation, we have a file IO issue so you can make this.


It seems that there is a difference between gnu basename and macOS basename.
```
$ which basename
/usr/local/opt/coreutils/libexec/gnubin/basename

find ./docker -maxdepth 1 -name 'docker-compose.*.yml' -print0 | xargs -0 /usr/bin/basename | cut -d'.' -f2 | xargs
common nfs skeleton
```

So running it by forcing the command to use the macOS built-in version works for me too.


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Usa un modo especial de LaTeX para citas, creo que es \verbatim


OTOH:
```
$ man basename

BASENAME(1)                                                  User Commands                                                  BASENAME(1)

NAME
       basename - strip directory and suffix from filenames

SYNOPSIS
       basename NAME [SUFFIX]
       basename OPTION... NAME...

DESCRIPTION
       Print NAME with any leading directory components removed.  If specified, also remove a trailing SUFFIX.

       Mandatory arguments to long options are mandatory for short options too.

       -a, --multiple
              support multiple arguments and treat each as a NAME
```

And when run using `basename -a` it works on both versions.


eir_hp_plr_error (mitchute) - x86_64-Linux-Ubuntu-18.04-gcc-7.4-IntegrationCoverage-Debug: OK (677 of 678 tests passed, 0 test warnings)

Failures:\n

integration Test Summary
 * Passed: 677
 * Timeout: 1

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-99.85%25-yellow.png) ![Coverage Badge](http://img.shields.io/badge/coverage%20status-68.35%25-green.png)


Associating issue #3 with this commit.


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:D 👌


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Looks good. Perhaps you could open a PR so I can comment on other parts of the branch?


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fair enough and i've swapped that around.


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also required it seems


i took the original error setup from the mat package.  i agree your way or rejigging it looks better -- and i've pushed that through.  not sure there is a "standard" way to doing errors within gonum at this point...mat and optimize use different variations on this sort of these.


did just that! I'm not sure why it was not there anymore, I remember adding it some months ago, it probably got overwritten by a merge.


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Для создания пустого хэша мы используем конструкцию `{}`


Added separate scenario.


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* https://todoestamal.com
* https://www.todoestamal.com
* https://www.todoestamal.es
* https://todoestamal.todoestamal1.now.sh
* https://todoestamal-git-master.todoestamal1.now.sh


Successfully deployed to following URLs:

* https://fit-d4by89or7.now.sh
* https://fit-alpha-wheat.now.sh
* https://fitapp.now.sh
* https://fit.amay.now.sh
* https://fit-git-master.amay.now.sh


This looks like old code. Definitely fixed here on module1-solution branch https://github.com/pluralsight-projects/javascript-functions/blob/module1-solution/js/gameoflife.js


Successfully deployed to following URLs:

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* https://www.dormdev.com
* https://dormdev.dorm-dev.now.sh
* https://dormdev-git-master.dorm-dev.now.sh


@mnelson4 Please see https://github.com/mnelson4/printmyblog/issues/44#issuecomment-570611690


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* https://spendwatcher-client-git-master.sihaocao.now.sh


sudo apt install samba


Successfully deployed to following URLs:

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* https://expensetracker.now.sh
* https://expensetracker.cerivitos.now.sh
* https://expensetracker-git-master.cerivitos.now.sh


принято наоборот использовать одинарные кавычки


Thanks!


Successfully deployed to following URLs:

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Successfully deployed to following URLs:

* https://soptqgithubio-6htix7gh1.now.sh
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* https://soptqgithubio.soptq.now.sh
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* https://deep-doge-git-master.imbenzenker.now.sh


This is just an inofficial patch. Please test against upstream [1] and report issues there.

[1] https://gitlab.com/lv2/lv2/


MOdel is working but probably the nutrients uptake and nutrients pool are in different units. _ need to correct it


[R/ABC_SMC.R:11:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L11) *style:* **Lines should not be more than 80 characters.**
```r
# @param    current                 vector       Current parameter combination for which we are determining the weight
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:12:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L12) *style:* **Lines should not be more than 80 characters.**
```r
# @param    sigma                   scalar       standard deviation of the perturbation
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:13:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L13) *style:* **Lines should not be more than 80 characters.**
```r
# @param    prior_density_function  function     Function to calculate the prior probability of a set of parameters
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:36:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L36) *style:* **Lines should not be more than 80 characters.**
```r
# @brief apply the ABC routine used in our Methods in Ecology and Evolution Paper
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:43:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L43) *style:* **Lines should not be more than 80 characters.**
```r
# @param    statistics                    vector      A vector containing functions that take a tree as an argument and return a single scalar value (the statistic).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:44:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L44) *style:* **Lines should not be more than 80 characters.**
```r
# @param    simulation_function           vector      A function that implements the diversification model and returns an object of class phylo
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:45:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L45) *style:* **Lines should not be more than 80 characters.**
```r
# @param    init_epsilon_values           vector      A vector containing the initial threshold values for the summary statistics from the vector statistics.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:46:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L46) *style:* **Lines should not be more than 80 characters.**
```r
# @param    prior_generating_function     function    Function to generate parameters from the prior distribution of these parameters (e.g. a function returning lambda and mu in case of the birth-death model)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:47:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L47) *style:* **Lines should not be more than 80 characters.**
```r
# @param    prior_density_function        function    Function to calculate the prior probability of a set of parameters (should match prior_generating_function in shape)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:48:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L48) *style:* **Lines should not be more than 80 characters.**
```r
# @param    number_of_particles           scalar      Number of particles to be used per iteration of the ABC-SMC algorithm.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:49:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L49) *style:* **Lines should not be more than 80 characters.**
```r
# @param    sigma                         scalar      Standard deviation of the perturbance distribution (perturbance distribution is a gaussian with mean 0).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:50:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L50) *style:* **Lines should not be more than 80 characters.**
```r
# @param    stop_rate                     scalar      If the acceptance rate drops below \code{stopRate}, stop the ABC-SMC algorithm  and assume convergence.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:51:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L51) *style:* **Lines should not be more than 80 characters.**
```r
# @return                                 matrix      A matrix with n columns, where n is the number of parameters you are trying to estimate.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:75:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L75) *style:* **Lines should not be more than 80 characters.**
```r
#'   from the prior distribution of these parameters (e.g. a function returning lambda and mu in case of the birth-death model)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:126:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L126) *style:* **functions should have cyclomatic complexity of less than 15, this has 42.**
```r
abc_smc_nltt <- function(tree,
^
```
[R/ABC_SMC.R:276:13:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L276) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
        if ( (number_accepted / tried) < stop_rate) {
            ^
```
[R/ABC_SMC.R:301:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L301) *style:* **Lines should not be more than 80 characters.**
```r
# @brief Estimate the likelihood of a given tree, provided a likelihood function, using a Monte Carlo Markov Chain
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:308:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L308) *style:* **Lines should not be more than 80 characters.**
```r
# @param    likelihood_function   function    Function that calculates the likelihood of our diversification model, given the tree.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:309:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L309) *style:* **Lines should not be more than 80 characters.**
```r
#                                             function should be of the format function(parameters, phy).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:310:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L310) *style:* **Lines should not be more than 80 characters.**
```r
# @param    parameters            vector      Initial parameters to start the chain.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:311:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L311) *style:* **Lines should not be more than 80 characters.**
```r
# @param    logtransforms         scalar      Whether to perform jumps on logtransformed parameters (TRUE) or not (FALSE)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:313:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L313) *style:* **Lines should not be more than 80 characters.**
```r
# @param    burnin                scalar      Length of the burnin, default is 30% of iterations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:315:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L315) *style:* **Lines should not be more than 80 characters.**
```r
# @param    sigma                 scalar      Standard deviation of the jumping distribution, which is N(0, sigma).
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:316:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L316) *style:* **Lines should not be more than 80 characters.**
```r
# @return                         mcmc        An MCMC object, as used by the package "coda".
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/ABC_SMC.R:320:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/ABC_SMC.R#L320) *style:* **functions should have cyclomatic complexity of less than 15, this has 34.**
```r
mcmc_nltt <- function(phy, likelihood_function,
^
```
[R/get_average_nltt_matrix.R:14:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/get_average_nltt_matrix.R#L14) *style:* **functions should have cyclomatic complexity of less than 15, this has 16.**
```r
get_average_nltt_matrix <- function(
^
```
[R/get_n_lineages.R:17:12:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/get_n_lineages.R#L17) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
    return(1:length(phylogeny$tip.label))
           ^
```
[R/get_norm_brts.R:22:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/get_norm_brts.R#L22) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nltt_diff_exact_extinct.R:47:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L47) *style:* **functions should have cyclomatic complexity of less than 15, this has 23.**
```r
nltt_diff_exact_extinct <- function(
^
```
[R/nltt_diff_exact_extinct.R:70:27:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L70) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "since"){
                          ^~
```
[R/nltt_diff_exact_extinct.R:77:25:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L77) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "ago"){
                        ^~
```
[R/nltt_diff_exact_extinct.R:102:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L102) *style:* **Lines should not be more than 80 characters.**
```r
    species_number_n <- species_number / max(species_number)  #normalize lineages
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:107:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L107) *style:* **Lines should not be more than 80 characters.**
```r
    event_times2_n <- 1 - event_times2 / min(event_times2) #normalize branching times
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:108:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L108) *style:* **Lines should not be more than 80 characters.**
```r
    species_number2_n <- species_number2 / max(species_number2)  #normalize lineages
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:175:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L175) *style:* **Commented code should be removed.**
```r
  # testit::assert(event_times[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:176:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L176) *style:* **Commented code should be removed.**
```r
  # testit::assert(species_number[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:177:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L177) *style:* **Commented code should be removed.**
```r
  # testit::assert(event_times2[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:178:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L178) *style:* **Commented code should be removed.**
```r
  # testit::assert(species_number[1] >= 0.0)
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:180:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L180) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(event_times >= 0.0 & event_times <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:181:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L181) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(species_number >= 0.0 & species_number <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:182:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L182) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(event_times2 >= 0.0 & event_times2 <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:183:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L183) *style:* **Commented code should be removed.**
```r
  # testit::assert(all(species_number >= 0.0 & species_number <= 1.0))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltt_diff_exact_extinct.R:222:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L222) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nltt_diff_exact_extinct.R:223:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L223) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nltt_diff_exact_extinct.R:224:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltt_diff_exact_extinct.R#L224) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/nLTTDiff.R:59:27:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L59) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "since"){
                          ^~
```
[R/nLTTDiff.R:66:25:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L66) *style:* **There should be a space between right parenthesis and an opening curly brace.**
```r
  if (time_unit == "ago"){
                        ^~
```
[R/nLTTDiff.R:186:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L186) *style:* **Lines should not be more than 80 characters.**
```r
#' Calculates the exact difference between the lineage through time curves of tree1 & tree2 (normalized in time and for the number of lineages)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:274:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L274) *style:* **Lines should not be more than 80 characters.**
```r
# @param    distance_method        string     Method to calculate the difference, either absolute, or squared
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:275:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L275) *style:* **Lines should not be more than 80 characters.**
```r
# @return                          scalar     normalized Lineage-Through-Time difference between tree1 & tree2
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:283:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L283) *style:* **Lines should not be more than 80 characters.**
```r
#' @usage nLTTstat(tree1, tree2, distance_method = "abs", ignore_stem = TRUE, log_transform = FALSE)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:344:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L344) *style:* **Lines should not be more than 80 characters.**
```r
# @param    distance_method        string     Method to calculate the difference, either absolute, or squared
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:345:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L345) *style:* **Lines should not be more than 80 characters.**
```r
# @param    ignore_stem            logical    Should the phylogeny its stem be ignored?
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nLTTDiff.R:346:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nLTTDiff.R#L346) *style:* **Lines should not be more than 80 characters.**
```r
# @return                          scalar     normalized Lineage-Through-Time difference between tree1 & tree2
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/nltts_plot.R:19:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/nltts_plot.R#L19) *style:* **functions should have cyclomatic complexity of less than 15, this has 17.**
```r
nltts_plot <- function(
^
```
[R/plot_nLTT.R:36:23:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L36) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
nltt_plot <- function( phy, xlab = "Normalized Time",
                      ^
```
[R/plot_nLTT.R:51:28:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L51) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] + abs( min( xy[, 1])) #make sure time runs from 0..T
                           ^
```
[R/plot_nLTT.R:51:33:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L51) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] + abs( min( xy[, 1])) #make sure time runs from 0..T
                                ^
```
[R/plot_nLTT.R:52:28:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L52) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] / max( xy[, 1])      #normalize time
                           ^
```
[R/plot_nLTT.R:94:32:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/plot_nLTT.R#L94) *style:* **Do not place spaces around code in parentheses or square brackets.**
```r
  xy[, 1] <- xy[, 1] + abs(min( xy[, 1])) #make sure time runs from 0..T
                               ^
```
[R/stretch_nltt_matrix.R:22:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/R/stretch_nltt_matrix.R#L22) *style:* **functions should have cyclomatic complexity of less than 15, this has 16.**
```r
stretch_nltt_matrix <- function(
^
```
[tests/testthat/test-abc_smc_nltt.R:30:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L30) *style:* **Commented code should be removed.**
```r
  # suppressWarnings(RNGversion("3.5.0"))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-abc_smc_nltt.R:35:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L35) *style:* **Variable and function name style should be snake_case.**
```r
  LL_BD <- function(params, phy) {
  ^~~~~
```
[tests/testthat/test-abc_smc_nltt.R:49:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L49) *style:* **Variable and function name style should be snake_case.**
```r
  ML <- stats::optimize(f = tofit, interval = c(0, 1))
  ^~
```
[tests/testthat/test-abc_smc_nltt.R:55:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-abc_smc_nltt.R#L55) *style:* **Variable and function name style should be snake_case.**
```r
  A <- abc_smc_nltt(
  ^
```
[tests/testthat/test-get_average_nltt.R:10:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-get_average_nltt.R#L10) *style:* **Commented code should be removed.**
```r
  # suppressWarnings(RNGversion("3.5.0"))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-get_average_nltt.R:41:5:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-get_average_nltt.R#L41) *style:* **Commented code should be removed.**
```r
  # suppressWarnings(RNGversion("3.5.0"))
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-mcmc_nltt.R:14:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-mcmc_nltt.R#L14) *style:* **Variable and function name style should be snake_case.**
```r
  LL_BD <- function(params, phy) {
  ^~~~~
```
[tests/testthat/test-mcmc_nltt.R:31:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-mcmc_nltt.R#L31) *style:* **Variable and function name style should be snake_case.**
```r
  ML <- optim(par = c(1, 0.001), fn = tofit)
  ^~
```
[tests/testthat/test-mcmc_nltt.R:58:3:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-mcmc_nltt.R#L58) *style:* **Variable and function name style should be snake_case.**
```r
  LL_BD <- function(params, phy) {
  ^~~~~
```
[tests/testthat/test-nltt_diff_exact_brts.R:40:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_brts.R#L40) *style:* **Lines should not be more than 80 characters.**
```r
    regexp = "branching times must be negative, for example -3 time units since the present"
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[tests/testthat/test-nltt_diff_exact_brts.R:66:1:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_brts.R#L66) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:29:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L29) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages1 <- 1:length(event_times)
               ^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:30:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L30) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages2 <- 1:length(event_times2)
               ^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:95:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L95) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages1 <- 1:length(event_times)
               ^
```
[tests/testthat/test-nltt_diff_exact_extinct.R:96:16:](https://github.com/Neves-P/nLTT/blob/5cb4a6ff37a1ac7978b4ca28d479111646b4dedb/tests/testthat/test-nltt_diff_exact_extinct.R#L96) *warning:* **Avoid 1:length(...) expressions, use seq_len.**
```r
  lineages2 <- 1:length(event_times2)
               ^
```


170845444_Issue7464 (Unknown) - x86_64-Linux-Ubuntu-18.04-cppcheck: OK (0 of 0 tests passed, 0 test warnings)

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png)


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Have a look at time travel section in this article: https://medium.com/coinmonks/testing-solidity-with-truffle-and-async-await-396e81c54f93 you can use that to mimic that a certain "time" has passed and the receiver didn't collect the remittance.


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Podem deixar això com estava? Em fa falta per a diferents combinacions spa-cat.


> A more preferable solution would be to figure out why m_col_pos.m_x and m_col_pos.m_y are offset from the main Rokko image. Thus I suspect the root problem is not in the Update_Rect_Rotation_Z method at all; we would need to spend some time hunting for it.

You are right, and the hack you suggest adds more complexity to TSC once again. A proper solution would be better. We ought to at least try to find the root cause before we conclude that fixing that one requires too much effort.


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Puzzle `29-bca8bfcb` disappeared from [`src/test/java/com/artipie/docker/storage/AstoRepoITCase.java`](https://github.com/artipie/docker-adapter/blob/master/src/test/java/com/artipie/docker/storage/AstoRepoITCase.java), that's why I closed #31. Please, remember that the puzzle was not necessarily removed in this particular commit. Maybe it happened earlier, but we discovered this fact only now.


Test Comment


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Hello @obiltschnig  This commit has the modifications for configuring OCSP stapling response verification for client connections for review. By default it is set to false.Have followed the guide lines in below openssl wiki link for configuring openssl call back functions.https://wiki.nikhef.nl/grid/How_to_handle_OpenSSL_and_not_get_hurt_and_what_does_that_library_call_really_do%3F#Enabling_OCSP_stapling_client_side_support

This is my first commit on this repo and github. Please let me know if I am missing any guide lines.

Thanks


Waaay better. Well done :tada:


reverted it


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Another Test Comment


One More Test Comment


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Rather use `@repo` instead of `BaseRepo.new`.


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@ThreeDayStory
@RNWolter


新版本


added guess game


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aren't querying too many times? redundant to query everytime you insert a chunk into table.


this line is not in my script
i don't know how it came here


Good hack though.


ok


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Pushed the file


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attention à pas mettre des phrases trop longues ;)


Level-6 (on master branch) and Level-7 (on branch-Level-7) were merged with fast-forward by accident.
Level-8 (on branch-Level-8) was then merged with that fast-forwarded merge.


Completely agree about not adding a bus just for the sake of it. Serial is fine and reliable.

> RE 5v tolerant pins

That’s great! I guess that explains why it worked. Btw, reminds me of the leds connected with esp — while they are 5v logic, 3.3v logic works perfectly fine in my experience. And for long wiring of DIN, some comments on hackaday reckon using the first led in ws2812b strips as a “repeater” is a good hack since DOUT from that led will correctly be 5v logic!

By the way, I changed the target to esp32, and made minor changes in this firmware and it compiled fine. So maybe we can switch the Arduino with an ESP32 and use the same firmware? That would remove all the hack I ended up doing.


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It would still be nice to grab a lease by name. It looks like we can return the id if it is a pattern match and otherwise do a search on a name. This should allow for a speed up on dashboard while retaining the functionality on the CLI.


Peux-tu renommer la classe stp ? (pas trés parlante)


Display skin has nothing to do with skin.
Display is broken by default.. Not OK.
Mention step should not be necessary.
Yes please test.


@AntoineT800 il sert à quoi ce Subject?


lmao


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Can you store a huge yaml file without losing formatting through snap set? I don't really like that approach in general though as init is a one time thing, if the value is changed at some random point in time things will be very confusing.


New display skins changes are coming with the next PLi merge ...


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7648_VRF_HREIRFTHeat_uses_Cap (jmarrec) - x86_64-MacOS-10.13-clang: OK (2618 of 2618 tests passed, 0 test warnings)

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You are pushing commits at a very fast pace (across the whole organization).
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@JuliaRegistrator register()


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This should do the job https://github.com/Z-Wave-Me/home-automation/commit/0cd0a3f6ada38c73698b6782ab2516dc41c707be

And please do pull requests in develop branch. Thanks for your contribution!


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This will be done automatically if [Julia TagBot](https://github.com/apps/julia-tagbot) is installed, or can be done manually through the github interface, or via:
```
git tag -a v0.6.7 -m "<description of version>" c7eef2b6a571c0f8d0e72d2504c3566f293e56d1
git push origin v0.6.7
```


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![](https://github.trello.services/images/mini-trello-icon.png) [(21) Update CSS](https://trello.com/c/I5sF7FSg/33-21-update-css)


that deserves one fat lmao


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packages/fast-storybook-presets/CHANGELOG.md 6a9fafe @SumonBormon-007


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Good Work on your answers.


> Also maybe it's possible to merge DialogOut and DialogOutEx as an universal one?

I'll do it later.


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This was requested by the server owner so they don't have to manually type the <@> container around the IDs, which is apparently harder for mobile users.


Yeah, great job indeed!


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bon pas grave j'ai le gros, mais jcrois que c'est bon mais qu'il faut reinitialiser a chaque récupération de pts pcque la ca dit 125 et 139 ca tord a mort le doigt


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@OsamaAbbas, just want to clarify what is @greenimpala contribution to this solution?


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When doing "with open()" you need only to put the name of the file in the parentheses because the file is already within the same folder as this current file. "with open(cities.csv)"


Can you actually keep this, I need the profile in a API


Принимаю


remove


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1000 is not enough when I'm testing it, was 5000 causing any problems?


This doesn't build on linux. it needs headers to build. VS builds just fine. I can submit a pr if that helps.


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It's either the nearest above or the nearest below, is what I'm trying to say.


I thought of that, but I'm okay with the slight notational abuse of an implicit `[0, -5)`. ^_^


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Looks good


CoderDojoきたかみ　ロゴ差し替え


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Thanks for adding me as author


Is it the intention that these paths be varying lengths? Is that the point of the test? Note that 1024 is not the max path length on most UNIX file systems, it's usually 255, so these tests are all kinds of wonky. Perhaps it would be easier to describe what the tests are trying to check for...


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Was this properly reviewed before submitting?


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penumbra-integration (nealkruis) - x86_64-MacOS-10.13-clang: OK (2619 of 2620 tests passed, 673 test warnings)

Messages:\n
 * 673 tests had: EIO diffs.
 * 22 tests had: BND diffs.
 * 3 tests had: MTD diffs.
 * 2 tests had: RDD diffs.
 * 3 tests had: ERR diffs.

Failures:\n

PenumbraTest Test Summary
 * Passed: 1
 * Failed: 1

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Was this done to increase performance? I noticed this entire event causes 40-50ms resource usage on the server.


This works well. Is it intentional to get an Event Log message every time a webhook is posted to the interface?

HTTPd - Jace's Interface: Stopping serverDevice Device 183155032
HTTPd - Jace's Interface: Starting serverDevice Device 183155032


I also resized a few command buttons for consistency


Probably not.  Turn on Debug logging, do that same thing, then post in an issue.
Commenting on the commits is not the right way to do things on GitHub.


Final


TeamCity Architecture Team / Java TC Platform / otj-logging / PR Build [Build ???.61/merge.25](https://teamcity.otenv.com/viewLog.html?buildId=11812930&buildTypeId=ArchitectureTeam_JavaTcPlatform_OtjLogging_PrBuild) is now running


Spring Boot without JPA


Failed to assign a domain to your deployment due to the following error:

~~~
The chosen alias "snuggsi.now.sh" is already in use.
~~~

([Learn more](https://zeit.co/sneakyhead/snuggsi/29jjqi154) or [visit](https://snuggsi-29jjqi154.now.sh) the non-aliased deployment)


TeamCity Architecture Team / Java TC Platform / otj-logging / PR Build [Build 3.0.9-SNAPSHOT.61/merge.25](https://teamcity.otenv.com/viewLog.html?buildId=11812930&buildTypeId=ArchitectureTeam_JavaTcPlatform_OtjLogging_PrBuild) outcome was **SUCCESS**
Summary: Tests passed: 14 Build time: 00:00:49


Trained an SVM to predict the trend of stock price on 11 th day based on moving average price previous days and achieved AUC score of 80%. Also predicted the stock price, with KRR and achieved RMSE to avg(y) ratio of 0.02.


 If you are thinking the normal process with shift the space from sc.chNext to sc.ch I believe if you check the scintilla code sc.chPrev, sc.ch and sc.chNext all get set to zero when you execute the forward function and currentPos => endPos, if my memory is correct.  The last character of data is also wiped out of sc.chPrev, the loss of sc.chPrev I do not believe is an issue at least not in the code I considered.
Dave

    On Monday, January 27, 2020, 10:04:08 PM EST, David Shuman <d.shuman@att.net> wrote:

That space in sc.ch is the major reason for the change.  The numbers and keywords that are not colorizing need to be delimited by white space.  In the current implementation of isWhiteSpace the null value 0 is NOT considered whitespace so that is why the items are not colorizing.  I am submitting a request to Neil Hodgson on the Scintilla project.  If Neil makes the change the safest form of this fix would be to add the second parameter of ' ' to the GetRelative calls, instead of my compensating calls.  In the prior note, I found yet another place where the assumption of the return value was incorrect it expected a valid whitespace character and instead is receiving null.

seehttps://sourceforge.net/p/scintilla/feature-requests/1336/

The text of the request follows:
 Neil;

What I believe is a simple request a revision to the prototype for the StyleContext.h GetRelative function.  The char SafeGetCharAt(Sci_Position position, char chDefault=' ') already has the default value desired by the lexUser.cxx code.  However the GetRelative function of StyleContext.h overrides the desired space to be a zero (null).  I believe the following will allow a request for a space to be returned (for those that want it with a coding change) at End of Text by GetRelative.  If I understand the call this would have no effect on any existing code due to the fact the default matches the current coded value.

The target function currently supports the desired parameter
```
    /** Safe version of operator[], returning a defined value for invalid position. */
    char SafeGetCharAt(Sci_Position position, char chDefault=' ') {
        if (position < startPos || position >= endPos) {
            Fill(position);
            if (position < startPos || position >= endPos) {
                // Position is outside range of document
                return chDefault;
            }
        }
        return buf[position - startPos];
    }
```

Making the following change seem totally safe, if I am correct.

Current --
```
    int GetRelative(Sci_Position n) {
        return static_cast<unsigned char>(styler.SafeGetCharAt(currentPos+n, 0));
    }
```

Proposed --
```
    int GetRelative(Sci_Position n, char chDefault='\0') {
        return static_cast<unsigned char>(styler.SafeGetCharAt(currentPos+n, chDefault));
    }

```

Thanks for considering this.

David Shuman
    On Sunday, January 26, 2020, 4:51:49 AM EST, xylographe <notifications@github.com> wrote:

Note to self: notepad-plus-plus#7852

—
You are receiving this because you were mentioned.
Reply to this email directly, view it on GitHub, or unsubscribe.


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Please create an issue with the error message


.. "parse" : "false" .. - this is string data


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@ambergupta954 Bro may i know why you have used this margin.


TeamCity MAS / MAS [Build 1.1.0.722+r173814A](https://teamcity.nice.org.uk/viewLog.html?buildId=64962&buildTypeId=Mas_Mas) outcome was **SUCCESS**
Summary: Tests passed: 9 Build time: 00:01:07


TeamCity MAS / MAS [Build 1.1.0.723](https://teamcity.nice.org.uk/viewLog.html?buildId=64968&buildTypeId=Mas_Mas) outcome was **FAILURE**
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TeamCity MAS / MAS [Build 1.1.0.724](https://teamcity.nice.org.uk/viewLog.html?buildId=64969&buildTypeId=Mas_Mas) outcome was **FAILURE**
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TeamCity MAS / MAS [Build 1.1.0.725](https://teamcity.nice.org.uk/viewLog.html?buildId=64970&buildTypeId=Mas_Mas) outcome was **FAILURE**
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TeamCity MAS / MAS [Build 1.1.0.726](https://teamcity.nice.org.uk/viewLog.html?buildId=64971&buildTypeId=Mas_Mas) outcome was **FAILURE**
Summary: Artifacts size 0 B is 100% different from 3.6 MB in build #1.1.0.679-MAS-153-ScrapeHTML (new); exit code 1 (Step: Set build number (Command Line)) (new) Build time: 00:00:11


TeamCity MAS / MAS [Build 1.1.0.727](https://teamcity.nice.org.uk/viewLog.html?buildId=64972&buildTypeId=Mas_Mas) outcome was **FAILURE**
Summary: Artifacts size 0 B is 100% different from 3.6 MB in build #1.1.0.688-MAS-194-strip-format (new); exit code 1 (Step: Set build number (Command Line)) (new) Build time: 00:00:11


Deployment failed with the following error:

~~~
Could not find a secret by name "firebase-database-url"
~~~


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[R/time_str_to_n_sec.R:27:1:](https://github.com/richelbilderbeek/peregrine/blob/aeae7eef7aae4606e5f4f0d41e69f9622c29db9e/R/time_str_to_n_sec.R#L27) *style:* **Trailing blank lines are superfluous.**
```r

^
```
[R/time_strs_to_n_secs.R:15:18:](https://github.com/richelbilderbeek/peregrine/blob/aeae7eef7aae4606e5f4f0d41e69f9622c29db9e/R/time_strs_to_n_secs.R#L15) *warning:* **no visible global function definition for ‘time_str_to_n_sec’**
```r
    n_secs[i] <- time_str_to_n_sec(strs[i])
                 ^~~~~~~~~~~~~~~~~
```
[R/time_strs_to_n_secs.R:19:1:](https://github.com/richelbilderbeek/peregrine/blob/aeae7eef7aae4606e5f4f0d41e69f9622c29db9e/R/time_strs_to_n_secs.R#L19) *style:* **Trailing blank lines are superfluous.**
```r

^
```


LGTM.

- Naresh


Nuuuuuuuu, nu direct copil al elementului html, asta intra in <head>!


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All Rules (3 / 3) Passed

      :crown: Good job! this pull request is aligned with your organization's best practices!

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Тест


Тебе тут логичней не использовать ридер на `@stations`, потому что эта переменная не будет динамически меняться при добавлении новой станции (поправь если я не прав)
Лучше вместо этого сделать кастомный ридер на `:stations` который будет возвращать
```
[@first_station, *@middle_stations, @last_station]
```


Hopa, wherefrom?


saw approval from MonsieurNicolas
at https://github.com/graydon/stellar-core/commit/896dc400f9c959e117404adf354e73cde4393609


merging graydon/stellar-core/no-collation-upgrade-on-ledger-headers = 896dc400 into auto


graydon/stellar-core/no-collation-upgrade-on-ledger-headers = 896dc400 merged ok, testing candidate = 690100ec


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