v1.1.12

Overview

This release (v1.1.12) is primarily a stability and compliance update intended for CRAN submission.

Updates:

Fix: Package startup message is now fully suppressible via suppressPackageStartupMessages().
Fix: Resolved R CMD check NOTES/WARNINGs by refining imports and globals.
Fix: DATASET_SIMPLEBAR now supports both data.frame and data.table inputs.
Fix: Removed leftover development print() checkpoints in binary dual-factor coloring.

1. Suppressible Startup Message

The package startup message was refactored to use a single packageStartupMessage() call. This respects suppressPackageStartupMessages(library(itol.toolkit)) and aligns with CRAN policy.

Example

# Shown
library(itol.toolkit)

# Suppressed
suppressPackageStartupMessages(library(itol.toolkit))

2. R CMD check Cleanups

Added precise @importFrom entries for dplyr, stats, data.table, and magrittr (for %>%).
Declared globals via utils::globalVariables() to silence NSE NOTES.
Replaced deprecated arrange_ usage in internal utilities.

These changes reduce namespace collisions and eliminate visibility NOTES during checks.

3. DATASET_SIMPLEBAR: data.frame and data.table Support

create_unit(..., type = "DATASET_SIMPLEBAR") now accepts both data.frame and data.table inputs seamlessly.

Minimal Example

library(itol.toolkit)

tree <- system.file("extdata","tree_of_itol_templates.tree",package = "itol.toolkit")

# data.frame
df <- data.frame(id = c("A","B","C"), v1 = 1:3, v2 = 4:6)
u_df <- create_unit(data = df, key = "SB_df", type = "DATASET_SIMPLEBAR", tree = tree)

# data.table
dt <- data.table::as.data.table(df)
u_dt <- create_unit(data = dt, key = "SB_dt", type = "DATASET_SIMPLEBAR", tree = tree)

4. Binary Dual-Factor Coloring: Cleanup

Removed temporary print() checkpoints left from development to keep console output clean. Functionality unchanged.

Tong Zhou