From 415ddef53792c1b96f0e095a3a6e751cab805283 Mon Sep 17 00:00:00 2001
From: Artur-man <artur-man@hotmail.com>
Date: Tue, 19 May 2026 21:12:40 +0200
Subject: [PATCH] remove geoarrow

---
 DESCRIPTION        | 1 -
 NAMESPACE          | 1 -
 R/read.R           | 1 -
 R/tables.R         | 1 +
 README.md          | 2 +-
 man/SpatialData.Rd | 2 +-
 6 files changed, 3 insertions(+), 5 deletions(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index b424d6d..ac31efa 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -59,7 +59,6 @@ Imports:
     dplyr,
     duckspatial,
     EBImage,
-    geoarrow,
     graph,
     Matrix,
     methods,
diff --git a/NAMESPACE b/NAMESPACE
index 76d7795..500ecb5 100644
--- a/NAMESPACE
+++ b/NAMESPACE
@@ -112,7 +112,6 @@ exportMethods(tableNames)
 exportMethods(tables)
 exportMethods(transform)
 exportMethods(translation)
-import(geoarrow)
 importFrom(BiocGenerics,as.data.frame)
 importFrom(BiocGenerics,colnames)
 importFrom(BiocGenerics,combine)
diff --git a/R/read.R b/R/read.R
index 30228f5..48250e5 100644
--- a/R/read.R
+++ b/R/read.R
@@ -90,7 +90,6 @@ readPoint <- function(x, ...) {
 #' @rdname readSpatialData
 #' @importFrom Rarr read_zarr_attributes
 #' @importFrom duckspatial ddbs_open_dataset
-#' @import geoarrow
 #' @export
 readShape <- function(x, ...) {
     md <- read_zarr_attributes(x)
diff --git a/R/tables.R b/R/tables.R
index a6c857d..c58b10b 100644
--- a/R/tables.R
+++ b/R/tables.R
@@ -149,6 +149,7 @@ setMethod("getTable", c("SpatialData", "character"), \(x, i, j, assay=1, drop=TR
 #' @export
 setMethod("setTable", c("SpatialData", "ANY"), \(x, i, ..., name=NULL, rk="rk", ik="ik") .invalid_i())
 
+# TODO: should this comment be removed ?
 # it seems pull below dispatches to arrow, and a warning on as_vector was being produced
 #' @rdname table-utils
 #' @importFrom methods as
diff --git a/README.md b/README.md
index 73fe312..76906ad 100644
--- a/README.md
+++ b/README.md
@@ -17,7 +17,7 @@ For more details on the framework, see [Marconato et al. (2024)](https://doi.org
 ## Key features
 
 - Out-of-memory handling of images and labels using `ZarrArray` (via the [Rarr](https://bioconductor.org/packages/Rarr) package).
-- Points and shapes are managed using [arrow](https://cran.r-project.org/package=arrow) or [duckdb](https://cran.r-project.org/package=duckdb)-backed tables.
+- Points and shapes are managed using [duckdb](https://cran.r-project.org/package=duckdb)-backed tables.
 - Functional annotations (e.g., gene expression) are represented as `SingleCellExperiment` objects, integrated via [anndataR](https://bioconductor.org/packages/anndataR).
 - A system for mapping data across multiple coordinate spaces, including support for transformation graphs.
 
diff --git a/man/SpatialData.Rd b/man/SpatialData.Rd
index 161b8fb..5cb1fd8 100644
--- a/man/SpatialData.Rd
+++ b/man/SpatialData.Rd
@@ -109,7 +109,7 @@ SpatialData(images, labels, points, shapes, tables)
 
 \S4method{tables}{SpatialData}(x)
 
-\S4method{table}{ANY}(...)
+\S4method{table}{ANY}(x, ...)
 
 \S4method{[[}{SpatialData,numeric,ANY}(x, i) <- value