[R/DAISIE_area_params.R:32:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_area_params.R#L32) *style:* **Lines should not be more than 80 characters.**
```r
#' @param proportional_peak_t value from 0 to 1 indicating where in the island's history the
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_area_params.R:32:93:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_area_params.R#L32) *style:* **Trailing whitespace is superfluous.**
```r
#' @param proportional_peak_t value from 0 to 1 indicating where in the island's history the
                                                                                ^
```
[R/DAISIE_area_params.R:37:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_area_params.R#L37) *style:* **Lines should not be more than 80 characters.**
```r
#' @return list of numerical values containing area parameters for island ontogeny
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_area_params.R:37:83:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_area_params.R#L37) *style:* **Trailing whitespace is superfluous.**
```r
#' @return list of numerical values containing area parameters for island ontogeny
                                                                                ^
```
[R/DAISIE_area_params.R:41:13:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_area_params.R#L41) *style:* **Trailing whitespace is superfluous.**
```r
#' @examples
            ^
```
[R/DAISIE_area_params.R:60:28:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_area_params.R#L60) *style:* **Trailing whitespace is superfluous.**
```r
  list(max_area = max_area,
                           ^
```
[R/DAISIE_create_island.R:5:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L5) *style:* **Lines should not be more than 80 characters.**
```r
#' @param island_spec matrix with species on island (state of system at each time point)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:7:75:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L7) *style:* **Trailing whitespace is superfluous.**
```r
#' @param keep_final_state logical indicating if final state of simulation
                                                                          ^
```
[R/DAISIE_create_island.R:10:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L10) *style:* **Lines should not be more than 80 characters.**
```r
#' @return list with the island information, composed stt table, branching times of extant
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:12:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L12) *style:* **Variable or function name should be snake_case.**
```r
DAISIE_create_island <- function(stt_table,
^~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:12:44:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L12) *style:* **Trailing whitespace is superfluous.**
```r
DAISIE_create_island <- function(stt_table,
                                           ^
```
[R/DAISIE_create_island.R:13:44:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L13) *style:* **Trailing whitespace is superfluous.**
```r
                                 totaltime,
                                           ^
```
[R/DAISIE_create_island.R:14:46:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L14) *style:* **Trailing whitespace is superfluous.**
```r
                                 island_spec,
                                             ^
```
[R/DAISIE_create_island.R:17:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L17) *style:* **Trailing whitespace is superfluous.**
```r

^~
```
[R/DAISIE_create_island.R:18:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L18) *style:* **Lines should not be more than 80 characters.**
```r
  ### if there are no species on the island branching_times = island_age, stac = 0, missing_species = 0
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:18:104:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L18) *style:* **Trailing whitespace is superfluous.**
```r
  ### if there are no species on the island branching_times = island_age, stac = 0, missing_species = 0
                                                                                ^
```
[R/DAISIE_create_island.R:19:27:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L19) *style:* **Commas should always have a space after.**
```r
  if (length(island_spec[,1]) == 0) {
                          ^
```
[R/DAISIE_create_island.R:20:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L20) *style:* **Trailing whitespace is superfluous.**
```r

^~
```
[R/DAISIE_create_island.R:21:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L21) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:33:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L33) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:34:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L34) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:35:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L35) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:37:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L37) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:45:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L45) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:47:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L47) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:49:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L49) *style:* **Lines should not be more than 80 characters.**
```r
    island_spec[, "branching time (BP)"] <- totaltime - as.numeric(island_spec[, "branching time (BP)"])
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:50:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L50) *style:* **Lines should not be more than 80 characters.**
```r
    island_spec[, "Colonisation time (BP)"] <- totaltime - as.numeric(island_spec[, "Colonisation time (BP)"])
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:51:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L51) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_create_island.R:58:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L58) *style:* **Trailing whitespace is superfluous.**
```r

^~~~~~
```
[R/DAISIE_create_island.R:60:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L60) *style:* **Lines should not be more than 80 characters.**
```r
      colonists_present <- sort(as.numeric(unique(island_spec[, 'Mainland Ancestor'])))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:60:65:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L60) *style:* **Only use double-quotes.**
```r
      colonists_present <- sort(as.numeric(unique(island_spec[, 'Mainland Ancestor'])))
                                                                ^~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:61:60:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L61) *style:* **Trailing whitespace is superfluous.**
```r
      number_colonists_present <- length(colonists_present)
                                                           ^
```
[R/DAISIE_create_island.R:62:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L62) *style:* **Trailing whitespace is superfluous.**
```r

^~~~~~
```
[R/DAISIE_create_island.R:63:35:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L63) *style:* **Trailing whitespace is superfluous.**
```r
      island_clades_info <- list()
                                  ^~
```
[R/DAISIE_create_island.R:65:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L65) *style:* **Lines should not be more than 80 characters.**
```r
        subset_island <- island_spec[which(island_spec[, 'Mainland Ancestor'] == colonists_present[i]),]
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:65:58:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L65) *style:* **Only use double-quotes.**
```r
        subset_island <- island_spec[which(island_spec[, 'Mainland Ancestor'] == colonists_present[i]),]
                                                         ^~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:65:104:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L65) *style:* **Commas should always have a space after.**
```r
        subset_island <- island_spec[which(island_spec[, 'Mainland Ancestor'] == colonists_present[i]),]
                                                                                ^
```
[R/DAISIE_create_island.R:65:105:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L65) *style:* **Trailing whitespace is superfluous.**
```r
        subset_island <- island_spec[which(island_spec[, 'Mainland Ancestor'] == colonists_present[i]),]
                                                                                ^
```
[R/DAISIE_create_island.R:66:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L66) *style:* **Trailing whitespace is superfluous.**
```r

^~~~~~~~
```
[R/DAISIE_create_island.R:67:37:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L67) *style:* **Only use double-quotes.**
```r
        if (class(subset_island) != 'matrix') {
                                    ^~~~~~~~
```
[R/DAISIE_create_island.R:71:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L71) *style:* **Trailing whitespace is superfluous.**
```r

^~~~~~~~
```
[R/DAISIE_create_island.R:73:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L73) *style:* **Lines should not be more than 80 characters.**
```r
                                                      island_spec = subset_island,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:75:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L75) *style:* **Lines should not be more than 80 characters.**
```r
                                                      keep_final_state = keep_final_state)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:81:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L81) *style:* **Trailing whitespace is superfluous.**
```r

^~~~~~~~
```
[R/DAISIE_create_island.R:84:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L84) *style:* **Lines should not be more than 80 characters.**
```r
                       taxon_list = island_clades_info, island_spec = island_spec)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_create_island.R:88:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_create_island.R#L88) *style:* **Trailing whitespace is superfluous.**
```r

^~
```
[R/DAISIE_data.R:2:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L2) *style:* **Lines should not be more than 80 characters.**
```r
#' @title Colonization and branching times of 8 terrestrial avifaunal clades in list
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:7:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L7) *style:* **Lines should not be more than 80 characters.**
```r
#' #' @description A list containing the colonization and branching times of the terrestrial
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:12:34:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L12) *style:* **Trailing whitespace is superfluous.**
```r
#' the following elements.\cr \cr
                                 ^
```
[R/DAISIE_data.R:47:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L47) *style:* **Lines should not be more than 80 characters.**
```r
#' @title Colonization and branching times of 8 terrestrial avifaunal clades in list
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:52:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L52) *style:* **Lines should not be more than 80 characters.**
```r
#' @description A list containing the colonization and branching times of the terrestrial
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:92:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L92) *style:* **Lines should not be more than 80 characters.**
```r
#' @title Colonization and branching times of 8 terrestrial avifaunal clades in table
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:96:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L96) *style:* **Lines should not be more than 80 characters.**
```r
#' @description A table containing the colonization and branching times of the terrestrial
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:103:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L103) *style:* **Lines should not be more than 80 characters.**
```r
#' * Non_endemic: for cases where both island and non-island populations of the species have been sampled) \cr
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:104:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L104) *style:* **Lines should not be more than 80 characters.**
```r
#' * Non_endemic_MaxAge: for cases where island population of the species has not
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:124:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L124) *style:* **Lines should not be more than 80 characters.**
```r
#' @title 1000 islands in RAW format simulated with the ML parameters of the CR model
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:125:27:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L125) *style:* **Trailing whitespace is superfluous.**
```r
#' for the Galapagos data.
                          ^
```
[R/DAISIE_data.R:127:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L127) *style:* **Lines should not be more than 80 characters.**
```r
#' @description Each simulated dataset is an element of the list, which can be called using
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:158:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L158) *style:* **Lines should not be more than 80 characters.**
```r
#' @title 1000 islands in DAISIE format simulated with the ML parameters of the CR
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:161:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L161) *style:* **Lines should not be more than 80 characters.**
```r
#' @description Each simulated dataset is an element of the list, which can be called using
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:165:42:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L165) *style:* **Trailing whitespace is superfluous.**
```r
#' \code{$island_age} - the island age\cr
                                         ^
```
[R/DAISIE_data.R:197:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L197) *style:* **Lines should not be more than 80 characters.**
```r
#' @description Each simulated dataset is an element of the list, which can be called using
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:247:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L247) *style:* **Lines should not be more than 80 characters.**
```r
#' @description A list containing the colonization and branching times of the terrestrial
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:256:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L256) *style:* **Lines should not be more than 80 characters.**
```r
#' The following elements of the list each contains information on a single colonist lineage
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:270:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L270) *style:* **Lines should not be more than 80 characters.**
```r
#' #' \code{$missing_species} - number of island species that were not sampled for
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_data.R:277:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_data.R#L277) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:2:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L2) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:7:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L7) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:10:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L10) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:86:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L86) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^~
```
[R/DAISIE_dataprep.R:87:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L87) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:88:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L88) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:89:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L89) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:90:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L90) *style:* **Lines should not be more than 80 characters.**
```r
#' ### Create Galapagos data object where all taxa have the same macroevolutionary process
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:91:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L91) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:98:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L98) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:100:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L100) *style:* **Lines should not be more than 80 characters.**
```r
#' # for the Darwin's finches. One process applies to type 1 species (all species
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:100:82:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L100) *style:* **Trailing whitespace is superfluous.**
```r
#' # for the Darwin's finches. One process applies to type 1 species (all species
                                                                                ^
```
[R/DAISIE_dataprep.R:101:79:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L101) *style:* **Trailing whitespace is superfluous.**
```r
#' # except for Darwin's finches) and the other applies only to type 2 species
                                                                              ^
```
[R/DAISIE_dataprep.R:104:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L104) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:113:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L113) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:114:80:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L114) *style:* **Trailing whitespace is superfluous.**
```r
#' ### Create Galapagos data object with a distinct macroevolutionary processes
                                                                               ^
```
[R/DAISIE_dataprep.R:115:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L115) *style:* **Lines should not be more than 80 characters.**
```r
#' # for the Darwin's finches. One process applies to type 1 species (all species
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:116:79:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L116) *style:* **Trailing whitespace is superfluous.**
```r
#' # except for Darwin's finches) and the other applies only to type 2 species
                                                                              ^
```
[R/DAISIE_dataprep.R:117:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L117) *style:* **Lines should not be more than 80 characters.**
```r
#' # (Darwin's finches). Set fraction of potential colonists of type 2 to be 0.163.
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:118:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L118) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:128:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L128) *style:* **Trailing whitespace is superfluous.**
```r
#'
  ^
```
[R/DAISIE_dataprep.R:130:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Lines should not be more than 80 characters.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:130:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Variable or function name should be snake_case.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
^~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:130:17:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Use <-, not =, for assignment.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                ^
```
[R/DAISIE_dataprep.R:130:38:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Commas should always have a space after.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                                     ^
```
[R/DAISIE_dataprep.R:130:49:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Commas should always have a space after.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                                                ^
```
[R/DAISIE_dataprep.R:130:49:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Variable or function name should be snake_case.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                                                ^
```
[R/DAISIE_dataprep.R:130:51:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Commas should always have a space after.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                                                  ^
```
[R/DAISIE_dataprep.R:130:74:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Commas should always have a space after.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                                                                         ^
```
[R/DAISIE_dataprep.R:130:131:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L130) *style:* **Commas should always have a space after.**
```r
DAISIE_dataprep = function(datatable,island_age,M,number_clade_types = 1,list_type2_clades = NA, prop_type2_pool = "proportional",epss = 1E-5)
                                                                                ^
```
[R/DAISIE_dataprep.R:131:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L131) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
{
^
```
[R/DAISIE_dataprep.R:132:24:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L132) *style:* **Use <-, not =, for assignment.**
```r
  number_colonisations = nrow(datatable)
                       ^
```
[R/DAISIE_dataprep.R:133:12:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L133) *style:* **Use <-, not =, for assignment.**
```r
  datalist = list()
           ^
```
[R/DAISIE_dataprep.R:134:13:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L134) *style:* **Variable or function name should be snake_case.**
```r
  datatable$Missing_species<-as.numeric(as.character(datatable$Missing_species))
            ^~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:134:28:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L134) *style:* **Put spaces around all infix operators.**
```r
  datatable$Missing_species<-as.numeric(as.character(datatable$Missing_species))
                          ~^~~
```
[R/DAISIE_dataprep.R:135:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L135) *style:* **Trailing whitespace is superfluous.**
```r

^~
```
[R/DAISIE_dataprep.R:136:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L136) *style:* **Place a space before left parenthesis, except in a function call.**
```r
  if(number_clade_types == 1)
    ^
```
[R/DAISIE_dataprep.R:137:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L137) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
  {
  ^
```
[R/DAISIE_dataprep.R:138:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L138) *style:* **Lines should not be more than 80 characters.**
```r
    datalist[[1]] = list(island_age=island_age,not_present=(M - number_colonisations))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:138:19:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L138) *style:* **Use <-, not =, for assignment.**
```r
    datalist[[1]] = list(island_age=island_age,not_present=(M - number_colonisations))
                  ^
```
[R/DAISIE_dataprep.R:138:36:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L138) *style:* **Put spaces around all infix operators.**
```r
    datalist[[1]] = list(island_age=island_age,not_present=(M - number_colonisations))
                                  ~^~
```
[R/DAISIE_dataprep.R:138:48:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L138) *style:* **Commas should always have a space after.**
```r
    datalist[[1]] = list(island_age=island_age,not_present=(M - number_colonisations))
                                               ^
```
[R/DAISIE_dataprep.R:138:59:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L138) *style:* **Put spaces around all infix operators.**
```r
    datalist[[1]] = list(island_age=island_age,not_present=(M - number_colonisations))
                                                         ~^~
```
[R/DAISIE_dataprep.R:138:60:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L138) *style:* **Place a space before left parenthesis, except in a function call.**
```r
    datalist[[1]] = list(island_age=island_age,not_present=(M - number_colonisations))
                                                           ^
```
[R/DAISIE_dataprep.R:140:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L140) *style:* **Place a space before left parenthesis, except in a function call.**
```r
  if(number_clade_types == 2)
    ^
```
[R/DAISIE_dataprep.R:141:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L141) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
  {
  ^
```
[R/DAISIE_dataprep.R:142:32:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L142) *style:* **Use <-, not =, for assignment.**
```r
    number_type2_colonisations = length(list_type2_clades)
                               ^
```
[R/DAISIE_dataprep.R:143:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L143) *style:* **Lines should not be more than 80 characters.**
```r
    number_type1_colonisations = number_colonisations - number_type2_colonisations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:143:32:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L143) *style:* **Use <-, not =, for assignment.**
```r
    number_type1_colonisations = number_colonisations - number_type2_colonisations
                               ^
```
[R/DAISIE_dataprep.R:145:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L145) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
    {
    ^
```
[R/DAISIE_dataprep.R:146:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L146) *style:* **Lines should not be more than 80 characters.**
```r
      not_present_type1 = DDD::roundn((M/number_colonisations) * number_type1_colonisations) - number_type1_colonisations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:146:25:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L146) *style:* **Use <-, not =, for assignment.**
```r
      not_present_type1 = DDD::roundn((M/number_colonisations) * number_type1_colonisations) - number_type1_colonisations
                        ^
```
[R/DAISIE_dataprep.R:146:41:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L146) *style:* **Put spaces around all infix operators.**
```r
      not_present_type1 = DDD::roundn((M/number_colonisations) * number_type1_colonisations) - number_type1_colonisations
                                       ~^~
```
[R/DAISIE_dataprep.R:147:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L147) *style:* **Lines should not be more than 80 characters.**
```r
      not_present_type2 = DDD::roundn((M/number_colonisations) * number_type2_colonisations) - number_type2_colonisations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:147:25:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L147) *style:* **Use <-, not =, for assignment.**
```r
      not_present_type2 = DDD::roundn((M/number_colonisations) * number_type2_colonisations) - number_type2_colonisations
                        ^
```
[R/DAISIE_dataprep.R:147:41:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L147) *style:* **Put spaces around all infix operators.**
```r
      not_present_type2 = DDD::roundn((M/number_colonisations) * number_type2_colonisations) - number_type2_colonisations
                                       ~^~
```
[R/DAISIE_dataprep.R:149:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L149) *style:* **Lines should not be more than 80 characters.**
```r
      not_present_type1 = DDD::roundn(M * (1 - prop_type2_pool)) - number_type1_colonisations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:149:25:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L149) *style:* **Use <-, not =, for assignment.**
```r
      not_present_type1 = DDD::roundn(M * (1 - prop_type2_pool)) - number_type1_colonisations
                        ^
```
[R/DAISIE_dataprep.R:150:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L150) *style:* **Lines should not be more than 80 characters.**
```r
      not_present_type2 = DDD::roundn(M * prop_type2_pool) - number_type2_colonisations
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:150:25:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L150) *style:* **Use <-, not =, for assignment.**
```r
      not_present_type2 = DDD::roundn(M * prop_type2_pool) - number_type2_colonisations
                        ^
```
[R/DAISIE_dataprep.R:152:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L152) *style:* **Lines should not be more than 80 characters.**
```r
    datalist[[1]] = list(island_age = island_age, not_present_type1 = not_present_type1, not_present_type2 = not_present_type2)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:152:19:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L152) *style:* **Use <-, not =, for assignment.**
```r
    datalist[[1]] = list(island_age = island_age, not_present_type1 = not_present_type1, not_present_type2 = not_present_type2)
                  ^
```
[R/DAISIE_dataprep.R:155:3:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L155) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
  {
  ^
```
[R/DAISIE_dataprep.R:156:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Lines should not be more than 80 characters.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:156:23:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Use <-, not =, for assignment.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
                      ^
```
[R/DAISIE_dataprep.R:156:71:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Commas should always have a space after.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
                                                                      ^
```
[R/DAISIE_dataprep.R:156:86:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Commas should always have a space after.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
                                                                                ^
```
[R/DAISIE_dataprep.R:156:107:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Commas should always have a space after.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
                                                                                ^
```
[R/DAISIE_dataprep.R:156:117:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Commas should always have a space after.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
                                                                                ^
```
[R/DAISIE_dataprep.R:156:147:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L156) *style:* **Commas should always have a space after.**
```r
    datalist[[i + 1]] = list(colonist_name = as.character(datatable[i,"Clade_name"]),branching_times = NA,stac = NA,missing_species = datatable[i,"Missing_species"], type1or2 = 1)
                                                                                ^
```
[R/DAISIE_dataprep.R:157:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L157) *style:* **Lines should not be more than 80 characters.**
```r
    the_brts = rev(sort(as.numeric(unlist(strsplit(as.character(datatable[i,"Branching_times"]),split = ",")))))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:157:14:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L157) *style:* **Use <-, not =, for assignment.**
```r
    the_brts = rev(sort(as.numeric(unlist(strsplit(as.character(datatable[i,"Branching_times"]),split = ",")))))
             ^
```
[R/DAISIE_dataprep.R:157:77:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L157) *style:* **Commas should always have a space after.**
```r
    the_brts = rev(sort(as.numeric(unlist(strsplit(as.character(datatable[i,"Branching_times"]),split = ",")))))
                                                                            ^
```
[R/DAISIE_dataprep.R:157:97:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L157) *style:* **Commas should always have a space after.**
```r
    the_brts = rev(sort(as.numeric(unlist(strsplit(as.character(datatable[i,"Branching_times"]),split = ",")))))
                                                                                ^
```
[R/DAISIE_dataprep.R:158:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L158) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_dataprep.R:159:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Lines should not be more than 80 characters.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:159:7:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Place a space before left parenthesis, except in a function call.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
      ^
```
[R/DAISIE_dataprep.R:159:21:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Put spaces around all infix operators.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                   ~^~
```
[R/DAISIE_dataprep.R:159:33:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                ^
```
[R/DAISIE_dataprep.R:159:46:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Only use double-quotes.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                             ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:159:70:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Commas should always have a space after.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                     ^
```
[R/DAISIE_dataprep.R:159:84:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Commas should always have a space after.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^
```
[R/DAISIE_dataprep.R:159:84:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Only use double-quotes.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^~~~~~~
```
[R/DAISIE_dataprep.R:159:92:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Commas should always have a space after.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^
```
[R/DAISIE_dataprep.R:159:117:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Commas should always have a space after.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^
```
[R/DAISIE_dataprep.R:159:132:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Commas should always have a space after.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^
```
[R/DAISIE_dataprep.R:159:132:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Only use double-quotes.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:159:160:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Commas should always have a space after.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^
```
[R/DAISIE_dataprep.R:159:163:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Put spaces around all infix operators.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ~^~
```
[R/DAISIE_dataprep.R:159:164:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Only use double-quotes.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^~
```
[R/DAISIE_dataprep.R:159:168:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L159) *style:* **Closing curly-braces should always be on their own line, unless it's followed by an else.**
```r
    if(max(the_brts)>island_age){print(paste('Colonisation time of ',max(the_brts),' for ',as.character(datatable[i,"Clade_name"]),' is older than island age',sep=''))}
                                                                                ^
```
[R/DAISIE_dataprep.R:160:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L160) *style:* **Trailing whitespace is superfluous.**
```r

^~~~
```
[R/DAISIE_dataprep.R:161:7:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L161) *style:* **Place a space before left parenthesis, except in a function call.**
```r
    if(length(the_brts) == 1)
      ^
```
[R/DAISIE_dataprep.R:161:30:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L161) *style:* **Trailing whitespace is superfluous.**
```r
    if(length(the_brts) == 1)
                             ^
```
[R/DAISIE_dataprep.R:162:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L162) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
    {
    ^
```
[R/DAISIE_dataprep.R:163:1:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L163) *style:* **Lines should not be more than 80 characters.**
```r
      datalist[[i + 1]]$branching_times = c(island_age,min(the_brts,island_age - epss))
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/DAISIE_dataprep.R:163:41:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L163) *style:* **Use <-, not =, for assignment.**
```r
      datalist[[i + 1]]$branching_times = c(island_age,min(the_brts,island_age - epss))
                                        ^
```
[R/DAISIE_dataprep.R:163:56:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L163) *style:* **Commas should always have a space after.**
```r
      datalist[[i + 1]]$branching_times = c(island_age,min(the_brts,island_age - epss))
                                                       ^
```
[R/DAISIE_dataprep.R:163:69:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L163) *style:* **Commas should always have a space after.**
```r
      datalist[[i + 1]]$branching_times = c(island_age,min(the_brts,island_age - epss))
                                                                    ^
```
[R/DAISIE_dataprep.R:165:7:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L165) *style:* **Place a space before left parenthesis, except in a function call.**
```r
    if(length(the_brts) > 1)
      ^
```
[R/DAISIE_dataprep.R:165:29:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L165) *style:* **Trailing whitespace is superfluous.**
```r
    if(length(the_brts) > 1)
                            ^~
```
[R/DAISIE_dataprep.R:166:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L166) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
    {
    ^
```
[R/DAISIE_dataprep.R:167:41:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L167) *style:* **Use <-, not =, for assignment.**
```r
      datalist[[i + 1]]$branching_times = c(island_age,the_brts)
                                        ^
```
[R/DAISIE_dataprep.R:167:56:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L167) *style:* **Commas should always have a space after.**
```r
      datalist[[i + 1]]$branching_times = c(island_age,the_brts)
                                                       ^
```
[R/DAISIE_dataprep.R:169:7:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L169) *style:* **Place a space before left parenthesis, except in a function call.**
```r
    if(datatable[i,"Status"] == "Non_endemic_MaxAge")
      ^
```
[R/DAISIE_dataprep.R:169:20:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L169) *style:* **Commas should always have a space after.**
```r
    if(datatable[i,"Status"] == "Non_endemic_MaxAge")
                   ^
```
[R/DAISIE_dataprep.R:170:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L170) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
    {
    ^
```
[R/DAISIE_dataprep.R:171:30:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L171) *style:* **Use <-, not =, for assignment.**
```r
      datalist[[i + 1]]$stac = 1
                             ^
```
[R/DAISIE_dataprep.R:173:7:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L173) *style:* **Place a space before left parenthesis, except in a function call.**
```r
    if(datatable[i,"Status"] == "Endemic")
      ^
```
[R/DAISIE_dataprep.R:173:20:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L173) *style:* **Commas should always have a space after.**
```r
    if(datatable[i,"Status"] == "Endemic")
                   ^
```
[R/DAISIE_dataprep.R:174:5:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L174) *style:* **Opening curly braces should never go on their own line and should always be followed by a new line.**
```r
    {
    ^
```
[R/DAISIE_dataprep.R:175:30:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L175) *style:* **Use <-, not =, for assignment.**
```r
      datalist[[i + 1]]$stac = 2
                             ^
```
[R/DAISIE_dataprep.R:176:9:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L176) *style:* **Place a space before left parenthesis, except in a function call.**
```r
      if(max(the_brts)>island_age){
        ^
```
[R/DAISIE_dataprep.R:176:23:](https://github.com/rsetienne/DAISIE/blob/8736ab0e6f4d6da5a349deec8eeb43f430dab8c0/R/DAISIE_dataprep.R#L176) *style:* **Put spaces around all infix operators.**
```r
      if(max(the_brts)>island_age){
                     ~^~
```


I removed all refs to material from your book. Best Alex


@april this commit fixed #2 and #3 however I only see the one section for Microsoft extensions:
![Screenshot from 2019-04-01 13-53-15](https://user-images.githubusercontent.com/1067355/55329341-4286eb80-5486-11e9-86d3-eb8500a60291.png)
Do the two OIDs relate to the two purposes?


shwould not JpaRepo be annotated with @autowired ?


OK, updated. Thanks.


```
define_method("#{name}=".to_sym) do |value|
  ...
end
```


```
define_method("#{name}=".to_sym) do |value|
  ...
end

```


Successfully aliased the URL <https://fenewsorg-q50qycsut.now.sh> to the following aliases.

* https://fenews.org
* https://fenewsorg-git-master.fe-news.now.sh


Nie trzeba opakowywać ciapkami :)


> I was wondering why you swapped the order around!

`TXP_PATTERN` constant depends on `enable_short_tags` pref, and `get_pref()` is defined in `txplib_misc.php`. But I did not notice that `$prefs` array is not yet populated at this stage anyway...


What is the hold up for this update?


Is there a reason for updating this version without any actual database changes?


Created multidev environment [diocese#ci-80](https://dashboard.pantheon.io/sites/2aa0885c-4b94-4a7e-8dd4-d8a7423b1b83#ci-80).

[![Visit Site](https://raw.githubusercontent.com/pantheon-systems/ci-drops-8/0.1.0/data/img/visit-site-36.png)](https://ci-80-diocese.pantheonsite.io/)


I think the problem lies in the store/restore parameter of the `CachedMatrixInverse` object, as `variance` is not explicitly declared as a variable here.
Should we replace the boolean variable `inverseKnown` in `CachedMatrixInverse` [here](https://github.com/beast-dev/beast-mcmc/blob/7c4d2ed4c4784e486b686b0fca05e9ecf9d97329/src/dr/inference/model/CachedMatrixInverse.java#L116) by a checking mechanism similar to the one in `TransfomedMultivariateParameter` [here](https://github.com/beast-dev/beast-mcmc/blob/7c4d2ed4c4784e486b686b0fca05e9ecf9d97329/src/dr/inference/model/TransformedMultivariateParameter.java#L98) ?


Uninstalling since it is no longer open source.


It checks if the length is bigger than a number which can be represented by 16 bits (two bytes).
That is to say, the shift operator is intentionally. I agree that it is not the prettiest way, but an actual number (2^16) wouldn't be any better. This way you see what this is about (being bigger than two bytes).
This is based on the RFC 4880.


Nice work retro-wertz! What games does this affect by chance? Would love to see the effects for this.

Also, I see you have experience with nestopia mappers. Any chance you might could help get Mapper 30 working for games like Twin Dragons? Is it an easier mapper to add? Thanks for all that you do!


Do you think I should add a comment if this is not clear?


@gajennings just out of curiosity, did this fix problems of this type?  Thanks!

    No answer blank provided for answer evaluator AnSwEr0001
    ------
    Answer evaluator AnSwEr0001 was not executed due to errors.`


Still figuring out how to approach this...


Не используется. Убрать

Убери подключение модуля `Validation` из классов в которых он не используется


Det känns som om klassdiagrammet ligger lite efter det vi bestämmer.
Vi bestämde att Activity bara skulle få elever via koppling till en(..många) StudentGroup.

Detta för att ge ett enda sätt att representera medlemskap för elever, mer plug and play.

Om Activity har egna elever så är (IMHO) det bara en glorifierad StudenGroup och modellen är isf fel eller måste tydliggöras för det finns för mycket tolkning och då måste man plötsligt veta vilket källsystem som är bakom.


Note: this modification has to be taken into account in jobs configurations related to feature-cmake branch in Jenkins.


sdfsdfsdf


naming issue : to be modified to CityJpaRepository