Changes in version 2.0.8                        

BUG FIXES

  - Cleared up potential memory leak in function-based application of
    project3().

                 Changes in version 2.0.7 (2026-02-13)                  

NEW FEATURES

  - A benchmark option has been added to functions project3(),
    invade3(), and batch_project3().

  - Unit tests added.

BUG FIXES

  - Processing of age-related parameters in batch projection of Leslie
    MPMs fixed.

  - Processing of supplements in batch_project3() no longer leads to an
    occasional memory leak.

                 Changes in version 2.0.0 (2026-02-09)                  

NEW FEATURES

  - Trait axes now include individual covariate values that can be used
    to create variants.

  - Density dependence through the additive limit and absolute limit
    functions has been added to projection and invasion functions.

  - Equivalence frames and density frames can now be added per annual
    matrix.

  - Community projections with projection3() can now handle
    post-processing of pre-existing MPMs with argument supplemental.

  - Function batch_project3() now runs batches of community projections
    using vectors of alterations input as matrix element offsets, given
    rate changes, and multipliers.

  - Function summary.adaptProjBatch() now summarizes batch community
    projections.

  - Function project3() now includes aggregate density in the output.

  - Function summary.adaptProj() now also outputs mean final population
    sizes for each MPM across replicates.

  - Function plot.adaptInv() now processes the first variable trait in
    the trait axis as the source of axis labels by default to PIPs, and
    to the x axis in elasticity plots.

USER-VISIBLE CHANGES

  - The output list structure for function project3() has changed, with
    item comm_out renamed to structure, and with its own structure
    changing such that the top-level list refers to replicates, and the
    lower-level list refers to input MPMs.

BUGS FIXED

  - Projection via vrm_input with deviance terms now no longer crashes.

  - Function project3() no longer always incorporates the current MPMs
    start vector as the vector at time 0, but instead incorporates it
    only as the correct start time.

  - Corrected issue resulting in Leslie-format function-based MPMs
    yielding matrices full of NAs if the format vector is missing.

  - Fixed fatal error in project3() occurring when the number of MPMs
    entered is smaller than the times projected using unequal stage
    weights across MPMs.

  - Fixed bug that led function summary.adaptProj() to acknowledge only
    a single replicate.

                        Changes in version 1.0.2                        

NEW FEATURES

  - ESS trait value optimization now handled via Golden section
    Nelder-Mead search algorithm.

  - Standard error bootstrapping example added to invasibility analysis
    vignette.

USER-VISIBLE CHANGES

  - Corrections to documentation.

  - Corrected default axis labels in function plot.adaptInv().

BUGS FIXED

  - Corrected optimization trait axis calculations in cases where traits
    span both positive and negative values.

  - Corrected ESS trait value calculations in cases where traits span
    both positive and negative values.

  - Function plot.adaptInv() now correctly labels axes with
    user-supplied values.

  - Function summary.adaptInv() now gives the correct number of variants
    tested.

                 Changes in version 1.0.1 (2025-07-16)                  

USER-VISIBLE CHANGES

  - Corrections to documentation.

                        Changes in version 1.0.0                        

NEW FEATURES

  - New community projection vignette.

USER-VISIBLE CHANGES

  - Corrected help files for certain functions.

                        Changes in version 0.9.9                        

USER-VISIBLE CHANGES

  - Invasibility analysis vignette fully created.

BUGS FIXED

  - Function invade3() now correctly subsets converged trait optima
    rows.

                        Changes in version 0.9.8                        

NEW FEATURES

  - Functions plot.adaptInv() and summary.adaptInv() created to plot and
    summarize invasibility analyses, respectively.

                        Changes in version 0.9.7                        

NEW FEATURES

  - Functions plot.adaptProj() and summary.adaptProj() created to plot
    and summarize community projections, respectively.

  - ESS optimization routine enabled for function invade3().

  - New invasibility analysis vignette added.

  - Threshold values for 0s created for function invade3().

                        Changes in version 0.9.6                        

NEW FEATURES

  - Function invade3() added to run invasibility analyses.

  - Function plot.adaptInv() created to plot the results of pairwise
    invasibility analyses.

  - Functions ta_skeletion() and trait_axis() created to develop quick
    trait axis data frames.

                        Changes in version 0.9.5                        

NEW FEATURES

  - Full project3() function developed. First full pre-invasion version.

USER-VISIBLE CHANGES

  - Updated error messages.

                        Changes in version 0.9.3                        

USER-VISIBLE CHANGES

  - Underlying functions adapted to newest LefkoUtils.

                        Changes in version 0.9.2                        

NEW FEATURES

  - Function project3() split up to allow creation of main invasion
    functions.

                        Changes in version 0.9.1                        

NEW FEATURES

  - Cypripedium parviflorum dataset added.

                         Changes in version 0.9                         

NEW FEATURES

  - First development version. Core function addyn_proj() function and
    accessory function equiv_input() developed.