docs and scripts: replace mentions of pybind11 with nanobind

CMakeLists.txt

@@ -67,9 +67,8 @@ endif()
 set(CMAKE_POLICY_DEFAULT_CMP0069 NEW)
 
 # Unless it's explicitly specifed, we want LTO for non-debug builds only.
-# pybind11Common.cmake has its own logic to set LTO options.
-# Having different options in pybind11_add_module than for gemmi_cpp
-# may cause problems -- we may need to handle it at some point.
+# TODO: check that it's compatible with nanobind_add_module, which has
+# its own logic of setting LTO options.
 if (NOT DEFINED CMAKE_INTERPROCEDURAL_OPTIMIZATION)
   include(CheckIPOSupported)
   check_ipo_supported(RESULT is_ipo_supported OUTPUT ipo_error)

docs/cif.rst

@@ -225,9 +225,6 @@ element found in mmCIF:
 
 More complex examples are shown in the :ref:`cif_examples` section.
 
-Internally, Python bindings use
-`pybind11 <https://github.com/pybind/pybind11>`_.
-
 
 DOM and SAX
 ===========

docs/install.rst

@@ -260,7 +260,7 @@ itself, but are used in command-line utilities, python bindings or tests:
 
 Not distributed with Gemmi:
 
-* `pybind11 <https://github.com/pybind/pybind11>`_ -- used for creating
+* `nanobind <https://github.com/wjakob/nanobind>`_ -- used for creating
   Python bindings. License: 3-clause BSD.
 * `zlib-ng <https://github.com/zlib-ng/zlib-ng>`_ -- optional, can be used
   instead of zlib for faster reading of gzipped files.

run-tests.sh

@@ -14,7 +14,7 @@ cd "$(dirname "$0")"
 BUILD_DIR="$(pwd)"
 [ -e build ] && BUILD_DIR="$(pwd)/build"
 if [ -z "${PYTHON-}" ]; then
-    PYTHON=`grep ^PYBIND11_PYTHON_EXECUTABLE_LAST: $BUILD_DIR/CMakeCache.txt | cut -d= -f2`
+    PYTHON=`grep ^_Python_EXECUTABLE: $BUILD_DIR/CMakeCache.txt | cut -d= -f2`
 fi
 
 # Build all, except when we called with an option to avoid full compilation:
@@ -70,11 +70,6 @@ if [ $1 = x -o $1 = a ]; then
     echo 'Run codespell'
     codespell include src prog python fortran tests examples docs wasm tools ||:
 
-    echo 'Run pybind11-stubgen'
-    pybind11-stubgen --dry-run --exit-code gemmi \
-        --enum-class-locations='Ignore:gemmi.ContactSearch' \
-        --enum-class-locations='.+:gemmi'
-
     echo 'Checking serialize.hpp...'
     $PYTHON tools/check_serialize.py
 fi

tools/linux-wheels.sh

@@ -1,4 +1,7 @@
 #!/bin/bash
+#
+# NOTE: this script is not used anymore. We use cibuildwheel now.
+#
 # based on
 # https://github.com/pypa/python-manylinux-demo/blob/master/travis/build-wheels.sh
 set -e -u -x
@@ -18,7 +21,6 @@ function repair_wheel {
 # Compile wheels
 #for PYBIN in /opt/python/cp38*/bin; do
 for PYBIN in /opt/python/*/bin; do
-    "${PYBIN}/pip" install pybind11
     "${PYBIN}/pip" wheel -v /io/ --no-deps -w wheelhouse/
 done
 

tools/upstream-check.py

@@ -8,8 +8,8 @@
 from urllib.request import urlopen
 
 TAGGED_REPOS = {
-    'pybind/pybind11': 'v2.6.1',
-    'scikit-build/scikit-build-core': 'v0.9.4',
+    'wjakob/nanobind': 'v2.1.0',
+    'scikit-build/scikit-build-core': 'v0.10.5',
     'taocpp/PEGTL': '2.8.3',
     'cxong/tinydir': '1.2.6',
     'fastfloat/fast_float': 'v6.1.5',
@@ -29,11 +29,11 @@ def load_json(url):
 
 def check_tags():
     for repo, version in TAGGED_REPOS.items():
-        url = 'https://api.github.com/repos/%s/releases/latest' % repo
-        data = load_json(url)
-        if 'tag_name' in data:
+        try:
+            url = 'https://api.github.com/repos/%s/releases/latest' % repo
+            data = load_json(url)
             latest_tag = data['tag_name']
-        else:
+        except IOError:
             data = load_json('https://api.github.com/repos/%s/tags' % repo)
             latest_tag = data[0]['name']
         mark = ('   !!!' if version != latest_tag else '')