[circle-mlir/infra] Bump h5py to 3.12.1 for Python 3.13 support

This commit bumps h5py package to version 3.12.1. This is the first
version which supports Python 3.13.

Changes has been tested with upgraded ONNX-MLIR and LLVM in order to
compile with GCC 15.2.0 which is the default compiler on Ubuntu 25.04.
Used tags for these projects:

GIT_TAG_ONNXMLIR: 8524104871c9a5c23973753e0f99ea8b42e3c943
GIT_TAG_LLVMPROJ: 0c2701fe7fa002e1befc5f86c268a7964f96d286

ONE-DCO-1.0-Signed-off-by: Arkadiusz Bokowy <a.bokowy@samsung.com>

Author: arkq

circle-mlir/infra/docker/focal/Dockerfile

@@ -32,6 +32,7 @@ ARG VER_TORCH=2.7.0+cpu
 ARG VER_ONNX=1.18.0
 ARG VER_ONNXRUNTIME=1.21.1
 ARG VER_NUMPY=1.26.4
+ARG VER_H5PY=3.12.1
 
 # Clean archives (to reduce image size)
 RUN apt-get clean -y
@@ -60,7 +61,7 @@ RUN ${WORK_DIR}/venv/bin/python3 -m pip install --upgrade pip setuptools
 RUN ${WORK_DIR}/venv/bin/python3 -m pip install numpy==${VER_NUMPY} torch==${VER_TORCH} \
     -f https://download.pytorch.org/whl/torch
 RUN ${WORK_DIR}/venv/bin/python3 -m pip install onnx==${VER_ONNX} onnxruntime==${VER_ONNXRUNTIME} \
-    h5py==3.8.0 einops
+    h5py==${VER_H5PY} einops
 
 # Download experimental patch file for onnx-mlir
 

circle-mlir/infra/docker/jammy/Dockerfile

@@ -29,6 +29,7 @@ ARG VER_TORCH=2.7.0+cpu
 ARG VER_ONNX=1.18.0
 ARG VER_ONNXRUNTIME=1.21.1
 ARG VER_NUMPY=1.26.4
+ARG VER_H5PY=3.12.1
 
 # Clean archives (to reduce image size)
 RUN apt-get clean -y
@@ -52,7 +53,7 @@ RUN ${WORK_DIR}/venv/bin/python3 -m pip install --upgrade pip setuptools
 RUN ${WORK_DIR}/venv/bin/python3 -m pip install numpy==${VER_NUMPY} torch==${VER_TORCH} \
     -f https://download.pytorch.org/whl/torch
 RUN ${WORK_DIR}/venv/bin/python3 -m pip install onnx==${VER_ONNX} onnxruntime==${VER_ONNXRUNTIME} \
-    h5py==3.8.0 einops
+    h5py==${VER_H5PY} einops
 
 # Download experimental patch file for onnx-mlir
 

circle-mlir/infra/docker/noble/Dockerfile

@@ -29,6 +29,7 @@ ARG VER_TORCH=2.7.0+cpu
 ARG VER_ONNX=1.18.0
 ARG VER_ONNXRUNTIME=1.21.1
 ARG VER_NUMPY=1.26.4
+ARG VER_H5PY=3.12.1
 
 # Clean archives (to reduce image size)
 RUN apt-get clean -y
@@ -52,7 +53,7 @@ RUN ${WORK_DIR}/venv/bin/python3 -m pip install --upgrade pip setuptools
 RUN ${WORK_DIR}/venv/bin/python3 -m pip install numpy==${VER_NUMPY} torch==${VER_TORCH} \
     -f https://download.pytorch.org/whl/torch
 RUN ${WORK_DIR}/venv/bin/python3 -m pip install onnx==${VER_ONNX} onnxruntime==${VER_ONNXRUNTIME} \
-    h5py==3.8.0 einops
+    h5py==${VER_H5PY} einops
 
 # Download experimental patch file for onnx-mlir
 

circle-mlir/infra/overlay/prepare-venv

@@ -20,7 +20,7 @@
 # use +e as python3.10 may not exist in the system and 'command' will return error.
 set +e
 
-PYTHON_CANDIDATES=("python3.12" "python3.10" "python3")
+PYTHON_CANDIDATES=("python3.13" "python3.12" "python3.10" "python3")
 for py in "${PYTHON_CANDIDATES[@]}"; do
   PYTHON3_EXEC=$(command -v "$py")
   if [[ -n "${PYTHON3_EXEC}" ]]; then
@@ -56,6 +56,7 @@ VER_TORCH=2.7.0+cpu
 VER_ONNX=1.18.0
 VER_ONNXRUNTIME=1.21.1
 VER_NUMPY=1.26.4
+VER_H5PY=3.12.1
 
 PYTHON_VERSION=$($VENV_PYTHON -c "import sys; print(f'{sys.version_info.major}.{sys.version_info.minor}')")
 echo "python3 version is $PYTHON_VERSION"
@@ -66,6 +67,9 @@ if [[ "$PYTHON_VERSION" == "3.10" ]]; then
 elif [[ "$PYTHON_VERSION" == "3.12" ]]; then
   # Ubuntu 24.04 is python3.12
   : # use as is
+elif [[ "$PYTHON_VERSION" == "3.13" ]]; then
+  # Ubuntu 25.04 is python3.13
+  : # use as is
 else
   echo "Error prepare-venv: Unsupported python version: $PYTHON_VERSION"
   exit 1
@@ -90,7 +94,7 @@ fi
 PYTHON_PACKAGES="torch==${VER_TORCH} "
 PYTHON_PACKAGES+="onnx==${VER_ONNX} "
 PYTHON_PACKAGES+="onnxruntime==${VER_ONNXRUNTIME} "
-PYTHON_PACKAGES+="h5py==3.8.0 "
+PYTHON_PACKAGES+="h5py==${VER_H5PY} "
 PYTHON_PACKAGES+="einops "
 PYTHON_PACKAGES+="numpy==${VER_NUMPY} "