From b06e4ade2481d129514dfe5dc5178bdcef74055b Mon Sep 17 00:00:00 2001
From: immanuelazn <immanuelazn@gmail.com>
Date: Thu, 11 Dec 2025 17:23:14 -0800
Subject: [PATCH] [cpp] add explicit hdf5 v1.12.0 dependency

---
 r/DESCRIPTION     | 5 +++++
 r/configure       | 2 +-
 r/configure.win   | 2 +-
 r/tools/h5write.c | 4 ++++
 4 files changed, 11 insertions(+), 2 deletions(-)

diff --git a/r/DESCRIPTION b/r/DESCRIPTION
index 3dd6ad3f..2e87f1ea 100644
--- a/r/DESCRIPTION
+++ b/r/DESCRIPTION
@@ -54,4 +54,9 @@ Suggests:
     RcppAnnoy
 Depends: 
     R (>= 4.0.0)
+SystemRequirements: C++17,
+    HDF5 (>= 1.12) [detected using base libraries, pkg-config 'hdf5' or 'h5cc' fallbacks or via conda in order; 
+        else set HDF5_CFLAGS/HDF5_LIBS],
+    Highway (>= 1.0.5) [optional; detected via pkg-config 'libhwy'/'hwy'; 
+        falls back to vendored build if not found]
 Config/Needs/website: pkgdown, devtools, uwot, irlba, RcppHNSW, igraph, BiocManager, bioc::BSgenome.Hsapiens.UCSC.hg38, github::GreenleafLab/motifmatchr, github::GreenleafLab/chromVARmotifs, png, magrittr
diff --git a/r/configure b/r/configure
index d6af5179..dedf11f6 100755
--- a/r/configure
+++ b/r/configure
@@ -109,7 +109,7 @@ if [ -z $HDF5_OK ]; then
 fi
 
 if [ -z $HDF5_OK ]; then
-    printf "\n\nUnable to locate libhdf5. Please install manually or edit compiler flags.\n"
+    printf "\n\nUnable to locate libhdf5 (>= 1.12.0). Please install manually or edit compiler flags.\n"
     exit 1
 fi
 
diff --git a/r/configure.win b/r/configure.win
index 396abbb9..6197233b 100755
--- a/r/configure.win
+++ b/r/configure.win
@@ -54,7 +54,7 @@ if [ -z $HDF5_OK ]; then
 fi
 
 if [ -z $HDF5_OK ]; then
-    printf "\n\nUnable to locate libhdf5. Please install manually or edit compiler flags.\n"
+    printf "\n\nUnable to locate libhdf5 (>= 1.12.0). Please install manually or edit compiler flags.\n"
     exit 1
 fi
 
diff --git a/r/tools/h5write.c b/r/tools/h5write.c
index 1278260d..e21f7202 100644
--- a/r/tools/h5write.c
+++ b/r/tools/h5write.c
@@ -18,6 +18,10 @@
 
 #include "hdf5.h"
 
+#if H5_VERS_MAJOR < 1 || (H5_VERS_MAJOR == 1 && H5_VERS_MINOR < 12)
+#error "HDF5 version 1.12.0 or greater required"
+#endif
+
 #define H5FILE_NAME "SDS.h5"
 #define DATASETNAME "IntArray"
 #define NX 5 /* dataset dimensions */