The package or namespace load for 'ANCOMBC' failed: 'namespace:CVXR' does not export the 'solve' object.

[0in0the0clouds0yl]

Problem Description

An error occurred when loading the ANCOMBC package, indicating that there is no exported object named 'solve' in the CVXR namespace.

Error Message ```r

library(ANCOMBC)

Error: package or namespace load failed for ‘ANCOMBC’:

The object 'solve' is not exported from 'namespace:CVXR'

Running environment
R version: [4.3.3]
ANCOMBC version: [2.8.1]
CVXR version: [1.8.1]
Operating system: [Windows]

The attempted solutions
Option A
#1. Reinstall CVXR remove.packages("CVXR")
install.packages("CVXR")

2. Update all dependencies update.packages(ask = FALSE)

3. Reinstall ANCOMBC from Bioconductor if (! require("BiocManager", quietly = TRUE))

install.packages("BiocManager")
BiocManager::install("ANCOMBC", force = TR)

#4.library(ANCOMBC)

Error: package or namespace load failed for ‘ANCOMBC’:

The object 'solve' is not exported from 'namespace:CVXR'

Option B

Temporarily downgrade CVXR to the older version with solve export functionality.

install.packages("https://cran.r-project.org/src/contrib/Archive/CVXR/CVXR_1.0-XX.tar.gz",
repos = NULL, type = "source")

Warning in install.packages :
cannot open URL 'https://cran.r-project.org/src/contrib/Archive/CVXR/CVXR_1.0-XX.tar.gz': HTTP status was '404 Not Found'
Error in download.file(p, destfile, method, mode = "wb", ...) :
Failed to open the URL'https://cran.r-project.org/src/contrib/Archive/CVXR/CVXR_1.0-XX.tar.gz'

Option C

1.install.packages("Matrix") # The "solve" function might also rely on the Matrix package

2.library(conflicted)

conflict_prefer("solve", "Matrix")
[conflicted] Will prefer Matrix::solve over any other package.
#3.library(ANCOMBC)
Error: package or namespace load failed for ‘ANCOMBC’:
The object 'solve' is not exported from 'namespace:CVXR'

Before upgrading the R version, ANCOMBC was functioning properly. Is it necessary to downgrade the R version?

[adrientaudiere]

Hi @0in0the0clouds0yl,
You can install the last development version of the ancombc that fix this bug using:

pak::pkg_install("FrederickHuangLin/ANCOMBC@bugfix")