Changelog • rcontroll

lidR and rlas remote in description for GA
Making lidR and rlas a suggest following CRAN archiving
Adding GRIB fix for era5_land_month, dirty fix for Nick to be cleaned.
Fixing climate generation for new CDS API but bug with nc extract of hourly monthly means, needs first grib dl and cdo convert to nc, should be replaced by GEE in future

merging and cleaning before CRAN fix

TROLL version 3.1.8 following discussion with IM, updating treefall time normalisation and carbon starvation to match TROLL4, a clean merge with main and dev will be needed

lidr fig

extended documentation following review

new stack in tmp fix & TROLLV3_output update

improving memory usage

fixed stack with batch foreach

fixes after CRAN 3rd submission (see cran-comments.md)

fixes after CRAN 2nd submission (see cran-comments.md)

replace sprintf to snprintf with sizeof() argument

removing terra reading NETcdf from climate vignette in macOS

clang support
REMINDER use valgrind for segfault : R -d “valgrind -s” -e ‘rcontroll::troll(name = “test”,global = rcontroll::generate_parameters(cols = 100, rows = 100,iterperyear = 12, nbiter = 12 * 1),species = rcontroll::TROLLv3_species,climate = rcontroll::TROLLv3_climatedaytime12,daily = rcontroll::TROLLv3_daytimevar,verbose = TRUE)’

fixed NEWS after CRAN 1st submission
removing dubious URL after CRAN 1st submission

fixing win-build notes (wrong link & typo)
dontrun troll example because >10s
reducing era5 data in climate vignette to reduce package size (<100MB)
removing worflow spatial figure to reduce size

cover fix 1
removed RcppGSL
badges added
climate vignette typos

including PR #39
Guillaume’s dev (configure, seed, lidar iter 0, CI)
Reject inmemory option
Cleaning code
Adding test (covr>80%)
Fixing era5 new version
Adding era5 extdata
Compiling climate vignette

dos2unix whole files
add inmemory option to load simulation(s) results
check consistency between Niter (global parameter) & iter_pointcloud_generation (lidar parameters)
checked url in documents

Add compilation configure files with gsl-config and download on Wondows OS (configure/configure.win, makevars.in, cleanup/cleanup)
Add chmod +x to configure & cleanup ex: git update-index --chmod=+x configure
Add Rseed setup to connect set.seed with gsl seed for enhanced reproductibility
Set hack to simulate at t = 0 lidar
remove license from build
update GA check
remove GA covr
update description title
code cleaning with lintr::lint_package & styler::style_pkg

LICENSE.md

lidr figure, updated README & doc, updated version

Fabian TROLL v1.3.7 fixes las closing, no las automatic creation, leafflush bug
Fixing the NULL character to “” for TROLL cpp

lidar backend:
las attribute as list(lidR::LAS) for trollsim & trollstack
lidR in DESCRIPTION
get_chm methods
print methods
autoplot methods
load_output and load_stack

Guillaume cleaned frontend for lidar

Update TROLL to 3.1.6 & add lidar generation parameters

fixed and & or operands in cpp for windows-latest (release)

methods get_forest & update_parameters

autogif v1

TROLL 1.3.3, TROLL.version() & autogif begins

merge @gsalzet rcpp_gsl

Add import GSL and Add CI on GH Actions multi-arch

Add CI on GH Actions multi-arch

Add CI on GH Actions ubuntu alone

Add configure.win, cleanup.win and Makevars.win files

Change permission access of configure file

Update GH actions

add configure file to detect GSL install
reviewed english

autoplot v2

Fabian’s cleaned CPP

using TROLL child for fake parralelisation
waiting for Fabian’s cleaned CPP

fabain’s neww cpp
pkgdown on gh-pages branch

pkgdown init

reviewed doc, vignettes, & README

fixed tests

reduced TROLLV3_output
fixed CRAN check
added CRAN comments

TROLLV3_output for exs and tests
autoplot upgraded
troll with fake parralelisation for R child runs of TROLL

test reprex, news to be filled

integration of TROLL main_v3.1_rcpp.cpp with corresponding new parameters
from data to be explored and values to be tested

doc & vignette

adding tests and fixing check

adding forest_path to work with FromData but is not correctly programmed in the cpp

cout and cerr to Rcout and Rcerr
adding a verbose to troll and stack

adding OUTPUT_reduced, FromData and NONRANDOM to general parameters with a lot of consequent changes
adding a thinning parameter
simplified vignette

simplifying trollsim and trollstack to one

seamless integration of trollCpp thanks to Rcpp !
updated troll.R & load_output
rm inst/troll & compile troll
rm climate365 & soil
vignette calibration & Schmitt2020
rm doc2word.sh

initiating all vignettes
doc2word.sh for sharing on gdrive
TROLL vignette

add progress bar in stack function with doSNOW package
R CMD check done: dev branch

corrected autoplot functions #11 #16
first attempt 1000 years vignette #13

generate_parameters #12

load_stack #9, print, show, summary stack #10, autoplot.stack #16, is.stack

stack #8

trollstack #6

autoplot.trollsim #11

#2 trollsim:
- parameters as a named vector
- forest and random as parameters
- final_pattern
- architecture for stacks
#3 troll:
- work with all binaries
- forest and random parameters
- final_pattern
#4 load_output:
- parameters as a named vector
- forest and random as parameters
- final_pattern
- consolidated reduced outputs

compile_troll and unix binaries #1

troll and load_output for all trollsimclasses #3 & #5

trollsimclasses #2

TROLL binaries for windows #1

load_output read all, consolidated output for TROLL_full #5
plot_ecosystem base plot for TROLL_full #11
print, summary # 10
troll binary path, tmp, unlink for TROLL_full #3
trollsim consolidated outputs for TROLL_full #2
zzz.R tmp
test-troll working
update workflow.Rmd

tidyverse style guide #14

TROLL binaries for unix #1

opened dev branch
opened documentation for data #10

opened old branch and cleaned main branch

relaunch of the package