duan_j
2b5bb570ca
First build failed in install: cp -a onto /opt/psi logs 'failed to preserve ownership ... Permission denied' for every file (chown refused) and exits non-zero, which tripped the die-guard although the copy itself was fine. Use cp -r --preserve=mode,timestamps,links instead. Record the pitfall in the new-module skill guardrails.
77 lines
4.1 KiB
Python
Executable File
77 lines
4.1 KiB
Python
Executable File
#!/usr/bin/env modbuild
|
|
|
|
# Olex2 - official open-source (BSD) Linux x86_64 distribution from OlexSys.
|
|
# https://www.olexsys.org/olex2/docs/getting-started/installing-olex2/
|
|
#
|
|
# Upstream ships NO installer and NOTHING to compile for Linux: a single
|
|
# olex2-linux64.zip that already contains
|
|
# olex2 GUI (wxWidgets) olex2c console/"headless" Olex2
|
|
# unirun vendor auto-updater (NOT used here) start vendor launcher (NOT used here)
|
|
# cctbx/ lib/ (private CPython 3.8 + libs) ilib/ util/ etc/ sample_data/ ...
|
|
# Default pbuild::prep downloads the zip (urls: in files/config.yaml), checks
|
|
# the pinned sha256 (shasums:) and copies it into SRC_DIR (unpacker: none).
|
|
# configure unzips, install copies the vendor tree 1:1 into $PREFIX (Olex2's
|
|
# BaseDir() is wherever the binaries sit) and adds $PREFIX/bin launchers.
|
|
#
|
|
# No errexit in modbuild hooks -> every critical step is die-guarded.
|
|
|
|
pbuild::configure() {
|
|
local -r zip="${SRC_DIR}/olex2-${V}-linux64.zip"
|
|
[[ -s "${zip}" ]] || std::die 42 "olex2: ${zip} not found - prep did not fetch it. \
|
|
Pre-stage the archive by hand as <distdir>/olex2-${V}-linux64.zip (see README) and re-run."
|
|
command -v unzip >/dev/null || std::die 42 "olex2: 'unzip' not on PATH on this build host"
|
|
# partial downloads reused from distfiles are the classic failure: test the archive first
|
|
unzip -tq "${zip}" >/dev/null || \
|
|
std::die 42 "olex2: archive is corrupt/truncated - rm <distdir>/olex2-${V}-linux64.zip and re-run"
|
|
# ~1 GB unpacked (cctbx + python + sample data); SRC_DIR is under --tmpdir
|
|
unzip -q -o "${zip}" -d "${SRC_DIR}" || std::die 42 "olex2: unzip failed (disk/quota at --tmpdir?)"
|
|
[[ -f "${SRC_DIR}/olex2/olex2c" && -f "${SRC_DIR}/olex2/olex2" ]] || \
|
|
std::die 42 "olex2: unexpected archive layout - expected ${SRC_DIR}/olex2/{olex2,olex2c}"
|
|
rm -f "${zip}"
|
|
}
|
|
|
|
pbuild::compile() {
|
|
:
|
|
}
|
|
|
|
pbuild::install() {
|
|
local -r src="${SRC_DIR}/olex2"
|
|
|
|
# 1. vendor tree, flat into $PREFIX (= BaseDir). Slow on /opt/psi: 12k files.
|
|
# NOT `cp -a`: on /opt/psi chown is refused, so -a ends with thousands of
|
|
# "failed to preserve ownership ... Permission denied" and a non-zero exit
|
|
# (that killed the first build). Keep mode/timestamps/links only.
|
|
cp -r --preserve=mode,timestamps,links "${src}/." "${PREFIX}/" || \
|
|
std::die 42 "olex2: copying the vendor tree into ${PREFIX} failed"
|
|
|
|
# 2. zip loses nothing, but make sure the ELF binaries are executable and
|
|
# everything is world-readable on the shared install
|
|
chmod 755 "${PREFIX}"/{olex2,olex2c,unirun,start,NoSpherA2,hart,hart_mpi} 2>/dev/null || true
|
|
chmod -R a+rX "${PREFIX}" || true
|
|
|
|
# 3. never auto-update a shared, read-only install (vendor default is
|
|
# update=Always + ask_update=true, driven by unirun). Best effort - the
|
|
# launchers never call unirun anyway.
|
|
if [[ -f "${PREFIX}/usettings.dat" ]]; then
|
|
sed -i -e 's/^update=.*/update=Never/' -e 's/^ask_update=.*/ask_update=false/' \
|
|
"${PREFIX}/usettings.dat" || true
|
|
fi
|
|
|
|
# 4. launchers: $PREFIX/bin/olex2 (GUI) and $PREFIX/bin/olex2c (console).
|
|
# Two copies of one script (it dispatches on basename $0, so no symlinks).
|
|
# Only $PREFIX/bin goes on PATH - the raw binaries and the vendor
|
|
# 'start' (auto-updater) stay off it.
|
|
mkdir -p "${PREFIX}/bin"
|
|
install -m 755 "${BUILDBLOCK_DIR}/files/olex2-launcher" "${PREFIX}/bin/olex2" || \
|
|
std::die 42 "olex2: installing bin/olex2 launcher failed"
|
|
install -m 755 "${BUILDBLOCK_DIR}/files/olex2-launcher" "${PREFIX}/bin/olex2c" || \
|
|
std::die 42 "olex2: installing bin/olex2c launcher failed"
|
|
|
|
# 5. what the modulefile / launchers rely on
|
|
local f
|
|
for f in olex2 olex2c cctbx/cctbx_build/lib lib/libpython3.8.so.1.0 lib/python3.8 util/pyUtil/initpy.py bin/olex2c; do
|
|
[[ -e "${PREFIX}/${f}" ]] || std::die 42 "olex2: ${PREFIX}/${f} missing after install - module would be broken"
|
|
done
|
|
echo "olex2: installed upstream build '$(cat "${PREFIX}/version.txt" 2>/dev/null)' (tag $(cat "${PREFIX}/olex2.tag" 2>/dev/null))"
|
|
}
|