Build against eic-shell #7962

Workflow file for this run

.github/workflows/linux-eic-shell.yml at 10184fa

	name: Build against eic-shell

	on:
	schedule: # run regularly on main branch
	- cron: '13 0/8 * * *'
	push:
	branches:
	- main
	- 'v[0-9]+.[0-9]+' # maintenance branches
	tags:
	- '*'
	pull_request:
	merge_group:
	workflow_dispatch:
	inputs:
	platform:
	description: 'eic-shell platform'
	default: 'eic_xl'
	required: false
	type: string
	release:
	description: 'eic-shell release'
	default: 'nightly'
	required: false
	type: string
	detector-version:
	description: 'epic geometry version'
	default: 'main'
	required: false
	type: string

	concurrency:
	group: ${{ github.workflow }}-${{ github.event.pull_request.number \|\| github.run_id }}
	cancel-in-progress: true

	env:
	# inputs doesn't always exist, so we make sure env does
	platform: ${{ inputs.platform \|\| 'eic_xl' }}
	release: ${{ inputs.release \|\| 'nightly' }}
	detector-version: ${{ inputs.detector-version \|\| 'main' }}
	clang-tidy-iwyu-CC: clang
	clang-tidy-iwyu-CMAKE_BUILD_TYPE: Debug
	JANA_OPTIONS: "-Pjana:ticker_interval=60000 -Pjana:extended_report=1 -Pjana:warmup_timeout=0 -Pjana:timeout=0"
	ASAN_OPTIONS: suppressions=${{ github.workspace }}/.github/asan.supp:malloc_context_size=20:detect_leaks=1:verify_asan_link_order=0:detect_stack_use_after_return=1:detect_odr_violation=1:new_delete_type_mismatch=0:intercept_tls_get_addr=0
	LSAN_OPTIONS: suppressions=${{ github.workspace }}/.github/lsan.supp
	UBSAN_OPTIONS: suppressions=${{ github.workspace }}/.github/ubsan.supp:print_stacktrace=1:silence_unsigned_overflow=1,report_error_type=1

	jobs:
	env:
	# env cannot be used in matrix, but outputs can
	# so this job turns env into outputs
	runs-on: ubuntu-latest
	outputs:
	platform_json: ${{ steps.define.outputs.platform_json }}
	release_json: ${{ steps.define.outputs.release_json }}
	steps:
	- id: define
	run: \|
	echo "platform_json=[\"${{ env.platform }}\"]" >> $GITHUB_OUTPUT
	echo "release_json=[\"${{ env.release }}\"]" >> $GITHUB_OUTPUT

	build:
	runs-on: ubuntu-latest
	needs: env
	strategy:
	# include multiple compilers for one release version,
	# and one compiler for a range of release versions
	matrix:
	CC: [gcc, clang]
	CMAKE_BUILD_TYPE: [Release, Debug]
	release: ${{ fromJSON(needs.env.outputs.release_json) }}
	include:
	# all gcc jobs use g++
	- CC: gcc
	CXX: g++
	# all clang jobs use clang++
	- CC: clang
	CXX: clang++
	# all clang debug jobs get extra flags
	- CC: clang
	CXX: clang++
	CMAKE_BUILD_TYPE: Debug
	CXXFLAGS: -fprofile-instr-generate -fcoverage-mapping
	# include some configs explicitly (if not yet included)
	- CC: clang
	CXX: clang++
	CMAKE_BUILD_TYPE: Release
	release: nightly
	- CC: clang
	CXX: clang++
	CMAKE_BUILD_TYPE: Release
	release: 24.04.0-stable
	- CC: clang
	CMAKE_BUILD_TYPE: Release
	release: 24.05.2-stable
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- uses: actions/checkout@v4
	with:
	filter: "tree:0"
	- name: Prepare ccache timestamp
	id: ccache_cache_timestamp
	run: \|
	echo "timestamp=$(date --iso-8601=minutes)" >> $GITHUB_OUTPUT
	- name: Retrieve ccache cache files
	uses: actions/cache@v4
	with:
	path: .ccache
	key: ccache-${{ matrix.CC }}-${{ matrix.release }}-${{ matrix.CMAKE_BUILD_TYPE }}-${{ github.head_ref \|\| github.ref_name }}-${{ steps.ccache_cache_timestamp.outputs.timestamp }}
	restore-keys: \|
	ccache-${{ matrix.CC }}-${{ matrix.release }}-${{ matrix.CMAKE_BUILD_TYPE }}-${{ github.ref_name }}-
	ccache-${{ matrix.CC }}-${{ matrix.release }}-${{ matrix.CMAKE_BUILD_TYPE }}-${{ github.head_ref }}-
	ccache-${{ matrix.CC }}-${{ matrix.release }}-${{ matrix.CMAKE_BUILD_TYPE }}-${{ github.base_ref }}-
	ccache-${{ matrix.CC }}-${{ matrix.release }}-${{ matrix.CMAKE_BUILD_TYPE }}-${{ github.event.merge_group.base_ref }}-
	ccache-${{ matrix.CC }}-${{ matrix.release }}-${{ matrix.CMAKE_BUILD_TYPE }}-
	ccache-${{ matrix.CC }}-${{ matrix.release }}-
	ccache-${{ matrix.CC }}-
	ccache-
	- name: Configure ccache
	run: \|
	mkdir -p ~/.ccache/
	echo "cache_dir=${{ github.workspace }}/.ccache" > ~/.ccache/ccache.conf
	echo "max_size=1500MB" >> ~/.ccache/ccache.conf
	echo "compression=true" >> ~/.ccache/ccache.conf
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Build and install
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ matrix.release }}"
	run: \|
	# install this repo
	CC="${{ matrix.CC }}" CXX="${{ matrix.CXX }}" CXXFLAGS="${{ matrix.CXXFLAGS }}" cmake -B build -S . -DCMAKE_INSTALL_PREFIX=install -DCMAKE_C_COMPILER_LAUNCHER=ccache -DCMAKE_CXX_COMPILER_LAUNCHER=ccache -DCMAKE_BUILD_TYPE=${{ matrix.CMAKE_BUILD_TYPE }} -DUSE_ASAN=ON -DUSE_TSAN=OFF -DUSE_UBSAN=ON
	cmake --build build -j $(getconf _NPROCESSORS_ONLN) --target install
	ccache --show-stats --verbose
	- name: Check dynamic library loader paths
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ matrix.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export LD_LIBRARY_PATH=$PWD/lib:$LD_LIBRARY_PATH
	for lib in install/lib/.so install/lib/EICrecon/plugins/.so ; do
	readelf -d $lib
	ldd -r $lib
	done
	- name: Run testsuite
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ matrix.release }}"
	run: \|
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins${JANA_PLUGIN_PATH:+:${JANA_PLUGIN_PATH}}
	ctest --test-dir build -V
	- name: Compress install directory
	run: tar -caf install.tar.zst install/
	- name: Upload install directory
	uses: actions/upload-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-${{ matrix.CMAKE_BUILD_TYPE }}-${{ env.platform }}-${{ matrix.release }}
	path: install.tar.zst
	if-no-files-found: error
	# Only compress and upload build directory if we are going to use it later
	- name: Compress build directory
	if: matrix.CC == env.clang-tidy-iwyu-CC && matrix.CMAKE_BUILD_TYPE == env.clang-tidy-iwyu-CMAKE_BUILD_TYPE
	run: tar -caf build.tar.zst build/
	- name: Upload build directory
	if: matrix.CC == env.clang-tidy-iwyu-CC && matrix.CMAKE_BUILD_TYPE == env.clang-tidy-iwyu-CMAKE_BUILD_TYPE
	uses: actions/upload-artifact@v4
	with:
	name: build-${{ matrix.CC }}-eic-shell-${{ matrix.CMAKE_BUILD_TYPE }}-${{ env.platform }}-${{ matrix.release }}
	path: build.tar.zst
	if-no-files-found: error

	clang-tidy-iwyu:
	runs-on: ubuntu-latest
	needs: build
	steps:
	- uses: actions/checkout@v4
	with:
	filter: "tree:0"
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Download build artifact
	uses: actions/download-artifact@v4
	with:
	name: build-${{ env.clang-tidy-iwyu-CC }}-eic-shell-${{ env.clang-tidy-iwyu-CMAKE_BUILD_TYPE }}-${{ env.platform }}-${{ env.release }}
	path: .
	- name: Uncompress build artifact
	run: tar -xaf build.tar.zst
	- name: Run clang-tidy on changed files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: ${{ github.event_name == 'pull_request' }}
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	run: \|
	git diff ${{ github.event.pull_request.head.sha }} ${{ github.event.pull_request.base.sha }} \| clang-tidy-diff -p 1 -path build -quiet -export-fixes clang_tidy_fixes.yml -extra-arg='-std=c++20' -checks='-,bugprone-,-bugprone-narrowing-conversions,-bugprone-macro-parentheses' -clang-tidy-binary run-clang-tidy
	- name: Run clang-tidy on all files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: ${{ github.event_name == 'push' }}
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	run: \|
	run-clang-tidy -p build -export-fixes clang_tidy_fixes.yml -extra-arg='-std=c++20'
	- name: Upload clang-tidy fixes as artifact
	uses: actions/upload-artifact@v4
	with:
	name: clang-tidy-fixes.yml
	path: clang_tidy_fixes.yml
	if-no-files-found: ignore
	- name: Suggest clang-tidy fixes as PR comments
	uses: platisd/[email protected]
	if: ${{ github.event_name == 'pull_request' }}
	with:
	github_token: ${{ secrets.GITHUB_TOKEN }}
	clang_tidy_fixes: clang_tidy_fixes.yml
	request_changes: true
	suggestions_per_comment: 10
	- name: Run include-what-you-use (iwyu) on changed files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: ${{ github.event_name == 'pull_request' }}
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	run: \|
	# reduce headers until diff is stable
	while [[ ${sha:-} != $(git diff \| sha256sum) ]] ; do
	sha=$(git diff \| sha256sum)
	echo $sha
	iwyu_tool.py -p build $(git diff --name-only ${{ github.event.pull_request.head.sha }} ${{ github.event.pull_request.base.sha }}) -- -Xiwyu --verbose=3 -Xiwyu --no_fwd_decls -Xiwyu --cxx17ns -Xiwyu --mapping_file=${{github.workspace}}/.github/iwyu.imp -Xiwyu --regex=ecmascript \| tee iwyu_fixes.log
	fix_includes.py --blank_lines --nosafe_headers --reorder --separate_project_includes="<tld>" --keep_iwyu_namespace_format < iwyu_fixes.log
	git diff \| tee iwyu_fixes.patch
	done
	- name: Run include-what-you-use (iwyu) on all files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: ${{ github.event_name == 'push' }}
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	run: \|
	# don't aim for stability for all files
	iwyu_tool.py -p build -- -Xiwyu --verbose=3 -Xiwyu --no_fwd_decls -Xiwyu --cxx17ns -Xiwyu --mapping_file=${{github.workspace}}/.github/iwyu.imp -Xiwyu --regex=ecmascript \| tee iwyu_fixes.log
	fix_includes.py --blank_lines --nosafe_headers --reorder --separate_project_includes="<tld>" --keep_iwyu_namespace_format < iwyu_fixes.log
	git diff \| tee iwyu_fixes.patch
	- name: Upload iwyu patch as artifact
	uses: actions/upload-artifact@v4
	with:
	name: iwyu_fixes.patch
	path: iwyu_fixes.patch
	if-no-files-found: ignore # no file is good
	- name: Fail when iwyu provided a patch for this pull request
	if: ${{ github.event_name == 'pull_request' }}
	run: git diff --exit-code

	llvm-cov:
	runs-on: ubuntu-latest
	needs: build
	permissions:
	statuses: write
	steps:
	- uses: actions/checkout@v4
	with:
	filter: "tree:0"
	- name: Download build artifact
	uses: actions/download-artifact@v4
	with:
	name: build-${{ env.clang-tidy-iwyu-CC }}-eic-shell-${{ env.clang-tidy-iwyu-CMAKE_BUILD_TYPE }}-${{ env.platform }}-${{ env.release }}
	path: .
	- name: Uncompress build artifact
	run: tar -xaf build.tar.zst
	- run: sudo apt-get update
	- run: sudo apt-get install -y llvm-15 jq
	- name: llvm-cov
	run: \|
	cd build
	COV_OPTIONS=('--ignore-filename-regex=usr/local/include/eigen3.+')
	llvm-profdata-15 merge -sparse src/tests/algorithms_test/algorithms_test.profraw \
	-o src/tests/algorithms_test/algorithms_test.profdata
	LIB_PATHS=()
	for LIB_PATH in $(find src/ -type f -name "libalgorithms_*.so"); do
	LIB_NAME="$(basename ${LIB_PATH%%.so})"
	LIB_NAME="${LIB_NAME##lib}"
	LIB_PATHS+=("$LIB_PATH")
	llvm-cov-15 report $LIB_PATH \
	-instr-profile=src/tests/algorithms_test/algorithms_test.profdata \
	"${COV_OPTIONS[@]}"
	COV_PERCENT=$(llvm-cov-15 export $LIB_PATH \
	-instr-profile=src/tests/algorithms_test/algorithms_test.profdata \
	"${COV_OPTIONS[@]}" \| jq '.data \| map(.totals.regions.percent) \| .[]' \| xargs printf "%.1f\n")
	if [ "${{ github.event.pull_request.head.repo.full_name }}" = "${{ github.repository }}" ]; then
	curl --request POST \
	--url https://api.github.com/repos/${{ github.repository }}/statuses/${{ github.event.pull_request.head.sha \|\| github.sha }} \
	--header "Accept: application/vnd.github+json" \
	--header "Authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" \
	--header "X-GitHub-Api-Version: 2022-11-28" \
	--data '{
	"state": "success",
	"context": "Code coverage ('$LIB_NAME') - '$COV_PERCENT'%"
	}' \
	--fail-with-body
	else
	echo 'PR submitted from a fork. Skipping posting the "Code coverage ('$LIB_NAME') - '$COV_PERCENT'%" status.'
	fi
	done
	llvm-cov-15 show "${LIB_PATHS[@]/#/--object=}" \
	-instr-profile=src/tests/algorithms_test/algorithms_test.profdata \
	-output-dir=codecov_report -format=html \
	"${COV_OPTIONS[@]}"
	- uses: actions/upload-artifact@v4
	with:
	name: codecov_report
	path: build/codecov_report/

	detector-info:
	runs-on: ubuntu-latest
	outputs:
	hash: ${{ steps.detector-info.outputs.hash }}
	steps:
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Get detector info
	id: detector-info
	run: \|
	file=/cvmfs/singularity.opensciencegrid.org/eicweb/${{ env.platform }}:${{ env.release }}/etc/jug_info
	test -f ${file}
	grep ' epic@' ${file}
	hash=$(grep ' epic@' ${file} \| sha256sum)
	echo "hash=${hash%% *}" \| tee $GITHUB_OUTPUT

	npsim-gun:
	runs-on: ubuntu-latest
	needs:
	- detector-info
	strategy:
	matrix:
	particle: [pi, e]
	detector_config: [craterlake]
	steps:
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Retrieve simulation files
	id: retrieve_simulation_files
	uses: actions/cache@v4
	with:
	path: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	key: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root-${{ needs.detector-info.outputs.hash }}
	- name: Produce simulation files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: steps.retrieve_simulation_files.outputs.cache-hit != 'true'
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	npsim --compactFile ${DETECTOR_PATH}/${DETECTOR}_${{ matrix.detector_config }}.xml -G --random.seed 1 --gun.particle "${{ matrix.particle }}-" --gun.momentumMin "1GeV" --gun.momentumMax "20GeV" --gun.distribution "uniform" -N 100 --outputFile sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root -v WARNING
	- uses: actions/upload-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	path: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	if-no-files-found: error

	npsim-gun-EcalLumiSpec:
	runs-on: ubuntu-latest
	needs:
	- detector-info
	strategy:
	matrix:
	particle: [e]
	detector_config: [ip6_extended]
	steps:
	- uses: actions/checkout@v4
	with:
	filter: "tree:0"
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Retrieve simulation files
	id: retrieve_simulation_files
	uses: actions/cache@v4
	with:
	path: sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root
	key: sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root-${{ needs.detector-info.outputs.hash }}
	- name: Produce simulation files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: steps.retrieve_simulation_files.outputs.cache-hit != 'true'
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	python src/tests/LUMISPECCAL_test/TwoElectronsTopCAL.py genParticles.hepmc
	npsim --compactFile ${DETECTOR_PATH}/${DETECTOR}_${{ matrix.detector_config }}.xml --inputFiles genParticles.hepmc --random.seed 1 --outputFile sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root -N 100 -v WARNING
	- uses: actions/upload-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root
	path: sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root
	if-no-files-found: error

	npsim-dis:
	runs-on: ubuntu-latest
	needs:
	- detector-info
	strategy:
	matrix:
	include:
	- beam: 10x100
	minq2: 1000
	detector_config: craterlake_tracking_only
	- beam: 18x275
	minq2: 1000
	detector_config: craterlake_18x275
	steps:
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Retrieve simulation files
	id: retrieve_simulation_files
	uses: actions/cache@v4
	with:
	path: sim_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4hep.root
	key: sim_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4hep.root-${{ needs.detector-info.outputs.hash }}
	- name: Produce simulation files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: steps.retrieve_simulation_files.outputs.cache-hit != 'true'
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	url=root://dtn-eic.jlab.org//work/eic2/EPIC/EVGEN/DIS/NC/${{matrix.beam}}/minQ2=${{matrix.minq2}}/pythia8NCDIS_${{matrix.beam}}_minQ2=${{matrix.minq2}}_beamEffects_xAngle=-0.025_hiDiv_1.hepmc3.tree.root
	npsim --compactFile ${DETECTOR_PATH}/${DETECTOR}_${{ matrix.detector_config }}.xml -N 100 --inputFiles ${url} --random.seed 1 --outputFile sim_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4hep.root -v WARNING
	- uses: actions/upload-artifact@v4
	with:
	name: sim_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4hep.root
	path: sim_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4hep.root
	if-no-files-found: error

	npsim-minbias:
	runs-on: ubuntu-latest
	needs:
	- detector-info
	strategy:
	matrix:
	include:
	- beam: 5x41
	detector_config: craterlake_5x41
	- beam: 10x100
	detector_config: craterlake
	- beam: 18x275
	detector_config: craterlake_18x275
	steps:
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Retrieve simulation files
	id: retrieve_simulation_files
	uses: actions/cache@v4
	with:
	path: sim_dis_${{matrix.beam}}_minQ2=0_${{ matrix.detector_config }}.edm4hep.root
	key: sim_dis_${{matrix.beam}}_minQ2=0_${{ matrix.detector_config }}.edm4hep.root-${{ needs.detector-info.outputs.hash }}
	- name: Produce simulation files
	uses: eic/run-cvmfs-osg-eic-shell@main
	if: steps.retrieve_simulation_files.outputs.cache-hit != 'true'
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	url=root://dtn-eic.jlab.org//work/eic2/EPIC/EVGEN/SIDIS/pythia6-eic/1.0.0/${{matrix.beam}}/q2_0to1/pythia_ep_noradcor_${{matrix.beam}}_q2_0.000000001_1.0_run1.ab.hepmc3.tree.root
	npsim --compactFile ${DETECTOR_PATH}/${DETECTOR}_${{ matrix.detector_config }}.xml -N 100 --inputFiles ${url} --random.seed 1 --outputFile sim_dis_${{matrix.beam}}_minQ2=0_${{ matrix.detector_config }}.edm4hep.root -v WARNING
	- uses: actions/upload-artifact@v4
	with:
	name: sim_dis_${{matrix.beam}}_minQ2=0_${{ matrix.detector_config }}.edm4hep.root
	path: sim_dis_${{matrix.beam}}_minQ2=0_${{ matrix.detector_config }}.edm4hep.root
	if-no-files-found: error

	eicrecon-two-stage-running:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-gun
	strategy:
	matrix:
	CC: [gcc]
	particle: [e]
	detector_config: [craterlake]
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Unarchive install directory
	run: tar -xaf install.tar.zst
	- name: Download simulation input
	uses: actions/download-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	- name: Setup cvmfs
	uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Run EICrecon (digitization)
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins${JANA_PLUGIN_PATH:+:${JANA_PLUGIN_PATH}}
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Ppodio:output_collections=EventHeader,MCParticles,EcalBarrelScFiRawHits,EcalBarrelImagingRawHits -Ppodio:output_file=two_stage_raw_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root -Pplugins=dump_flags,janadot -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	- name: Upload digitization output
	uses: actions/upload-artifact@v4
	with:
	name: two_stage_raw_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	path: two_stage_raw_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	if-no-files-found: error
	- name: Run EICrecon (reconstruction)
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins${JANA_PLUGIN_PATH:+:${JANA_PLUGIN_PATH}}
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Ppodio:output_collections=EcalBarrelClusters,EcalBarrelClusterAssociations -Ppodio:output_file=two_stage_rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root two_stage_raw_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root -Pplugins=dump_flags,janadot -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	- name: Upload reconstruction output
	uses: actions/upload-artifact@v4
	with:
	name: two_stage_rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	path: two_stage_rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	if-no-files-found: error

	eicrecon-eicmkplugin:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-gun
	strategy:
	matrix:
	CC: [gcc]
	particle: [e]
	detector_config: [craterlake]
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Unarchive install directory
	run: tar -xaf install.tar.zst
	- uses: actions/download-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Run EICrecon
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins${JANA_PLUGIN_PATH:+:${JANA_PLUGIN_PATH}}
	$PWD/install/bin/eicmkplugin.py MyCustomPlugin
	cmake -S MyCustomPlugin -B MyCustomPlugin/build -DEICrecon_ROOT=$PWD/install -DUSER_PLUGIN_OUTPUT_DIRECTORY=$PWD/install/lib/EICrecon/plugins
	cmake --build MyCustomPlugin/build -j $(getconf _NPROCESSORS_ONLN) --target install
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Pplugins=MyCustomPlugin -Ppodio:output_file=rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root -Pplugins=dump_flags,janadot -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json

	eicrecon-test-plugins:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-gun
	strategy:
	matrix:
	CC: [gcc]
	particle: [e]
	detector_config: [craterlake]
	test_plugins:
	- geometry_navigation_test
	- tracking_test
	- track_propagation_test
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Unarchive install directory
	run: tar -xaf install.tar.zst
	- uses: actions/download-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Run EICrecon
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins${JANA_PLUGIN_PATH:+:${JANA_PLUGIN_PATH}}
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Pplugins=${{ matrix.test_plugins }} -Phistsfile=rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}_${{ matrix.test_plugins }}.hists.root -Ppodio:output_file=rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root -Pplugins=dump_flags,janadot -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}_${{ matrix.test_plugins }}.hists.root
	path: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}_${{ matrix.test_plugins }}.hists.root
	if-no-files-found: error

	eicrecon-benchmarks-plugins:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-gun
	strategy:
	matrix:
	CC: [gcc]
	particle: [e]
	detector_config: [craterlake]
	benchmark_plugins:
	- EcalBarrelScFiCheck
	- femc_studies
	- lfhcal_studies
	- tof_efficiency
	- TRACKINGcheck
	- tracking_efficiency
	- tracking_occupancy
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Unarchive install directory
	run: tar -xaf install.tar.zst
	- uses: actions/download-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Run EICrecon
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins${JANA_PLUGIN_PATH:+:${JANA_PLUGIN_PATH}}
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Pplugins=${{ matrix.benchmark_plugins }} -Phistsfile=rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}_${{ matrix.benchmark_plugins }}.hists.root -Ppodio:output_file=rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root -Pplugins=dump_flags,janadot -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}_${{ matrix.benchmark_plugins }}.hists.root
	path: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}_${{ matrix.benchmark_plugins }}.hists.root
	if-no-files-found: error

	eicrecon-gun:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-gun
	strategy:
	matrix:
	CC: [clang]
	particle: [pi, e]
	detector_config: [craterlake]
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Uncompress install directory
	run: tar -xaf install.tar.zst
	- uses: actions/download-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Check dynamic library loader paths
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	ldd -r install/lib/.so install/lib/EICrecon/plugins/.so
	- name: Run EICrecon
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	echo "::add-matcher::${{github.workspace}}/.github/ubsan.json"
	echo "::add-matcher::${{github.workspace}}/.github/eicrecon.json"
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins:/usr/local/plugins
	prmon --json-summary rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.prmon.json -- \
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Ppodio:output_file=rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root sim_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4hep.root -Pplugins=dump_flags,janadot,janatop $(<${{ github.workspace }}/.github/janadot.groups) -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	path: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	if-no-files-found: error
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.prmon.json
	path: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.prmon.json
	if-no-files-found: error
	- name: Convert execution graphs
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	mv jana.dot rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.dot
	sed '/rank=sink/s/"podio::Frame";//; /podio::Frame/d; /rank=source/s/"JEventProcessorPODIO";//; /JEventProcessorPODIO/d' *.dot \| dot -Tsvg > jana.svg
	mv jana.svg rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.svg
	continue-on-error: true
	- uses: actions/upload-artifact@v4
	with:
	name: ${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	path: ${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	if-no-files-found: error
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.dot
	path: \|
	*.dot
	*.svg
	if-no-files-found: error
	- name: Download previous artifact
	id: download_previous_artifact
	uses: dawidd6/action-download-artifact@v6
	with:
	branch: ${{ github.base_ref \|\| github.event.merge_group.base_ref \|\| github.ref_name }}
	path: ref/
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	workflow: ".github/workflows/linux-eic-shell.yml"
	workflow_conclusion: "completed"
	if_no_artifact_found: warn
	- name: Compare to previous artifacts
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	mkdir capybara-reports
	mkdir new
	ln -sf ../rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root new/
	# using nullglob to ensure ref/* does not fail
	shopt -s nullglob
	capybara bara ref/*rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root new/rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.edm4eic.root
	mv capybara-reports rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}
	touch .rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}.capy
	path: \|
	.rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}
	rec_${{ matrix.particle }}_1GeV_20GeV_${{ matrix.detector_config }}/
	if-no-files-found: error

	eicrecon-gun-EcalLumiSpec:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-gun-EcalLumiSpec
	strategy:
	matrix:
	CC: [clang]
	particle: [e]
	detector_config: [ip6_extended]
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Unarchive install directory
	run: tar -xaf install.tar.zst
	- uses: actions/download-artifact@v4
	with:
	name: sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Run EICrecon
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins:/usr/local/plugins
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Ppodio:output_file=rec_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4eic.root sim_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4hep.root -Ppodio:output_collections=EcalLumiSpecRawHits,EcalLumiSpecRecHits,EcalLumiSpecClusters,EcalLumiSpecClusterAssociations -PLUMISPECCAL:EcalLumiSpecIslandProtoClusters:splitCluster=1 -Pplugins=dump_flags,janadot,janatop $(<${{ github.workspace }}/.github/janadot.groups) -Pdump_flags:json=${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4eic.root
	path: rec_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.edm4eic.root
	if-no-files-found: error
	- name: Convert execution graphs
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	mv jana.dot rec_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.dot
	sed '/rank=sink/s/"podio::Frame";//; /podio::Frame/d; /rank=source/s/"JEventProcessorPODIO";//; /JEventProcessorPODIO/d' *.dot \| dot -Tsvg > jana.svg
	mv jana.svg rec_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.svg
	continue-on-error: true
	- uses: actions/upload-artifact@v4
	with:
	name: ${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	path: ${{ matrix.particle }}_${{ matrix.detector_config }}_flags.json
	if-no-files-found: error
	- uses: actions/upload-artifact@v4
	with:
	name: rec_${{ matrix.particle }}_EcalLumiSpec_${{ matrix.detector_config }}.dot
	path: \|
	*.dot
	*.svg
	if-no-files-found: error

	eicrecon-dis:
	runs-on: ubuntu-latest
	needs:
	- build
	- npsim-dis
	- npsim-minbias
	strategy:
	matrix:
	include:
	- CC: clang
	beam: 5x41
	minq2: 0
	detector_config: craterlake_5x41
	- CC: clang
	beam: 10x100
	minq2: 0
	detector_config: craterlake
	- CC: clang
	beam: 18x275
	minq2: 0
	detector_config: craterlake_18x275
	- CC: clang
	beam: 10x100
	minq2: 1000
	detector_config: craterlake_tracking_only
	- CC: clang
	beam: 18x275
	minq2: 1000
	detector_config: craterlake_18x275
	steps:
	- name: mmap rnd_bits workaround
	# https://github.com/actions/runner/issues/3207#issuecomment-2000066889
	run: \|
	sudo sysctl -w vm.mmap_rnd_bits=28
	- name: Checkout .github
	uses: actions/checkout@v4
	with:
	sparse-checkout: .github
	- name: Download install directory
	uses: actions/download-artifact@v4
	with:
	name: install-${{ matrix.CC }}-eic-shell-Release-${{ env.platform }}-${{ env.release }}
	- name: Unarchive install directory
	run: tar -xaf install.tar.zst
	- uses: actions/download-artifact@v4
	with:
	name: sim_dis_${{ matrix.beam }}_minQ2=${{ matrix.minq2 }}_${{ matrix.detector_config }}.edm4hep.root
	- uses: cvmfs-contrib/github-action-cvmfs@v4
	- name: Run EICrecon
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	echo "::add-matcher::${{github.workspace}}/.github/ubsan.json"
	echo "::add-matcher::${{github.workspace}}/.github/eicrecon.json"
	export DETECTOR_CONFIG=${DETECTOR}_${{ matrix.detector_config }}
	export LD_LIBRARY_PATH=$PWD/install/lib:$LD_LIBRARY_PATH
	export JANA_PLUGIN_PATH=$PWD/install/lib/EICrecon/plugins:/usr/local/plugins
	prmon --json-summary rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.prmon.json -- \
	$PWD/install/bin/eicrecon $JANA_OPTIONS -Ppodio:output_file=rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root sim_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4hep.root -Pacts:WriteObj=true -Pacts:WritePly=true -Pplugins=janadot,janatop $(<${{ github.workspace }}/.github/janadot.groups)
	- uses: actions/upload-artifact@v4
	with:
	name: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root
	path: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root
	if-no-files-found: error
	- uses: actions/upload-artifact@v4
	with:
	name: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.prmon.json
	path: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.prmon.json
	if-no-files-found: error
	- name: Convert execution graphs
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	mv jana.dot rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.dot
	sed '/rank=sink/s/"podio::Frame";//; /podio::Frame/d; /rank=source/s/"JEventProcessorPODIO";//; /JEventProcessorPODIO/d' *.dot \| dot -Tsvg > jana.svg
	mv jana.svg rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.svg
	continue-on-error: true
	- uses: actions/upload-artifact@v4
	with:
	name: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.dot
	path: \|
	*.dot
	*.svg
	if-no-files-found: error
	- uses: actions/upload-artifact@v4
	with:
	name: obj_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}
	path: \|
	*.mtl
	*.obj
	if-no-files-found: error
	- uses: actions/upload-artifact@v4
	with:
	name: ply_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}
	path: \|
	*.ply
	if-no-files-found: error
	- name: Download previous artifact
	id: download_previous_artifact
	uses: dawidd6/action-download-artifact@v6
	with:
	branch: ${{ github.base_ref \|\| github.event.merge_group.base_ref \|\| github.ref_name }}
	path: ref/
	name: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root
	workflow: ".github/workflows/linux-eic-shell.yml"
	workflow_conclusion: "completed"
	if_no_artifact_found: warn
	- name: Compare to previous artifacts
	uses: eic/run-cvmfs-osg-eic-shell@main
	with:
	platform-release: "${{ env.platform }}:${{ env.release }}"
	setup: "/opt/detector/epic-${{ env.detector-version }}/bin/thisepic.sh"
	run: \|
	mkdir capybara-reports
	mkdir new
	ln -sf ../rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root new/
	# using nullglob to ensure ref/* does not fail
	shopt -s nullglob
	capybara bara ref/*rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root new/rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.edm4eic.root
	mv capybara-reports rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}
	touch .rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}
	- uses: actions/upload-artifact@v4
	with:
	name: rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}.capy
	path: \|
	.rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}
	rec_dis_${{matrix.beam}}_minQ2=${{matrix.minq2}}_${{ matrix.detector_config }}/
	if-no-files-found: error

	trigger-container:
	runs-on: ubuntu-latest
	if: ${{ github.event_name != 'merge_group' && github.event_name != 'schedule' && github.actor != 'dependabot[bot]' }}
	needs:
	- eicrecon-gun
	steps:
	- uses: eic/trigger-gitlab-ci@v3
	id: trigger
	with:
	url: https://eicweb.phy.anl.gov
	project_id: 290
	token: ${{ secrets.EICWEB_CONTAINER_TRIGGER }}
	ref_name: master
	variables: \|
	GITHUB_REPOSITORY=${{ github.repository }}
	GITHUB_SHA=${{ github.event.pull_request.head.sha \|\| github.sha }}
	GITHUB_PR=${{ github.event.pull_request.number }}
	EICRECON_VERSION="${{ github.event.pull_request.head.ref \|\| github.ref_name }}"
	PIPELINE_NAME=${{ github.repository }}: ${{ github.event.pull_request.title \|\| github.ref_name }}
	- name: Post a GitHub CI status
	run: \|
	gh api \
	--method POST \
	-H "Accept: application/vnd.github+json" \
	/repos/${{ github.repository }}/statuses/${{ github.event.pull_request.head.sha \|\| github.sha }} \
	-f state="pending" \
	-f target_url="${{ steps.trigger.outputs.web_url }}" \
	-f description="Triggered... $(TZ=America/New_York date)" \
	-f context="eicweb/eic_container"
	env:
	GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}

	build-docs:
	runs-on: ubuntu-latest
	needs:
	- eicrecon-gun
	- eicrecon-dis
	steps:
	- uses: actions/checkout@v4
	- name: Copy docs
	run: \|
	cp -r docs publishing_docs
	- name: Run Doxygen
	if: github.ref_name == 'main'
	run: \|
	sudo apt install doxygen graphviz
	doxygen Doxyfile
	mv html publishing_docs/doxygen
	- uses: actions/upload-artifact/merge@v4
	with:
	name: jana.dot
	pattern: \|
	*.dot
	delete-merged: true
	- uses: actions/download-artifact@v4
	with:
	name: jana.dot
	path: publishing_docs/dot/
	- uses: actions/upload-artifact/merge@v4
	with:
	name: capybara
	pattern: \|
	*.capy
	delete-merged: true
	- uses: actions/upload-artifact@v4
	with:
	name: docs
	path: publishing_docs/
	if-no-files-found: error

	list-open-prs:
	runs-on: ubuntu-latest
	outputs:
	json: ${{ steps.remap.outputs.json }}
	steps:
	- uses: octokit/[email protected]
	id: query
	with:
	route: GET /repos/${{ github.repository }}/pulls?state=open
	env:
	GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
	- name: Remap open PRs
	id: remap
	uses: nickofthyme/object-remap@v2
	with:
	__case: snake
	include..pr: ${{ toJSON(fromJSON(steps.query.outputs.data)..number) }}
	include..head_sha: ${{ toJSON(fromJSON(steps.query.outputs.data)..head.sha) }}

	get-docs-from-open-prs:
	runs-on: ubuntu-latest
	needs:
	- build-docs
	- list-open-prs
	strategy:
	matrix: ${{ fromJSON(needs.list-open-prs.outputs.json) }}
	fail-fast: false
	max-parallel: 4
	steps:
	- name: Download docs artifact (other PRs)
	uses: dawidd6/action-download-artifact@v6
	if: github.event.pull_request.number != matrix.pr
	with:
	commit: ${{ matrix.head_sha }}
	path: publishing_docs/pr/${{ matrix.pr }}/
	name: docs
	workflow: ".github/workflows/linux-eic-shell.yml"
	workflow_conclusion: "completed"
	if_no_artifact_found: ignore
	- name: Download docs artifact (this PR)
	uses: actions/download-artifact@v4
	if: github.event.pull_request.number == matrix.pr
	with:
	name: docs
	path: publishing_docs/pr/${{ matrix.pr }}/
	- name: Download capybara artifact (other PRs)
	id: download_capybara
	uses: dawidd6/action-download-artifact@v6
	if: github.event.pull_request.number != matrix.pr
	with:
	commit: ${{ matrix.head_sha }}
	path: publishing_docs/pr/${{ matrix.pr }}/capybara/
	name: capybara
	workflow: ".github/workflows/linux-eic-shell.yml"
	workflow_conclusion: "completed"
	if_no_artifact_found: ignore
	- name: Download capybara artifact (this PR)
	uses: actions/download-artifact@v4
	if: github.event.pull_request.number == matrix.pr
	with:
	name: capybara
	path: publishing_docs/pr/${{ matrix.pr }}/capybara/
	- name: Remove doxygen in PR
	run: rm -rf publishing_docs/pr/*/doxygen
	- uses: actions/upload-artifact@v4
	with:
	name: github-pages-staging-pr-${{ matrix.pr }}
	path: publishing_docs/
	if-no-files-found: ignore

	get-docs-from-main:
	runs-on: ubuntu-latest
	needs:
	- build-docs
	steps:
	# Note:
	# - If we run this on a non-main branch, we download from main with action-download-artifact.
	# - If we run this on the main branch, we have to download from this pipeline with download-artifact.
	- name: Download docs artifact (in PR)
	uses: dawidd6/action-download-artifact@v6
	if: github.ref_name != 'main'
	with:
	branch: main
	path: publishing_docs/
	name: docs
	workflow: ".github/workflows/linux-eic-shell.yml"
	workflow_conclusion: "completed"
	if_no_artifact_found: fail
	- name: Download docs artifact (on main)
	uses: actions/download-artifact@v4
	if: github.ref_name == 'main'
	with:
	name: docs
	path: publishing_docs/
	- name: Download capybara artifact (in PR)
	id: download_capybara
	uses: dawidd6/action-download-artifact@v6
	if: github.ref_name != 'main'
	with:
	commit: ${{ matrix.head_sha }}
	path: publishing_docs/capybara/
	name: capybara
	workflow: ".github/workflows/linux-eic-shell.yml"
	workflow_conclusion: "completed"
	if_no_artifact_found: ignore
	- name: Download capybara artifact (on main)
	uses: actions/download-artifact@v4
	if: github.ref_name == 'main'
	with:
	name: capybara
	path: publishing_docs/capybara/
	- name: Populate capybara summary (on main)
	if: github.ref_name == 'main' \|\| steps.download_capybara.outputs.found_artifact == 'true'
	run: \|
	echo "### Capybara summary for main" >> publishing_docs/capybara/index.md
	find publishing_docs/capybara/ -mindepth 1 -maxdepth 1 -type d -printf \
	"- [%f](https://eicrecon.epic-eic.org/capybara/%f/index.html)\n" \| sort >> publishing_docs/capybara/index.md
	- name: Create capybara step summary (this PR)
	if: github.ref_name == 'main'
	run: \|
	cat publishing_docs/capybara/index.md >> $GITHUB_STEP_SUMMARY
	- uses: actions/upload-artifact@v4
	with:
	name: github-pages-staging-main
	path: publishing_docs/
	if-no-files-found: error

	collect-docs:
	runs-on: ubuntu-latest
	needs:
	- get-docs-from-main
	- get-docs-from-open-prs
	steps:
	- name: Merge GitHub Pages staging artifact
	# FIXME pinned per https://github.com/actions/upload-artifact/issues/485#issuecomment-2271527517
	# to avoid https://github.com/eic/EICrecon/actions/runs/10486195490/job/29045183375#step:2:111
	uses: actions/upload-artifact/[email protected]
	with:
	name: github-pages-staging
	pattern: \|
	github-pages-staging-*
	delete-merged: true
	- name: Download GitHub Pages staging artifact
	uses: actions/download-artifact@v4
	with:
	name: github-pages-staging
	path: publishing_docs/
	- name: Make PR summary page
	run: \|
	echo "### PRs" >> publishing_docs/pr/index.md
	find publishing_docs/pr -mindepth 1 -maxdepth 1 -type d -printf "- [%f](%f/index.md)\n" \| sort >> publishing_docs/pr/index.md
	- name: List content to publish
	run:
	find publishing_docs/
	- name: Upload GitHub Pages artifact
	uses: actions/upload-pages-artifact@v3
	with:
	path: publishing_docs/
	retention-days: 7
	- name: Populate capybara summary
	if: ${{ github.event_name == 'pull_request' }}
	run: \|
	echo "### Capybara summary for PR ${{ github.event.pull_request.number }}" >> capybara_${{ github.event.pull_request.number }}.md
	find publishing_docs/pr/${{ github.event.pull_request.number }}/capybara/ -mindepth 1 -maxdepth 1 -type d -printf \
	"- [%f](https://eicrecon.epic-eic.org/pr/${{ github.event.pull_request.number }}/capybara/%f/index.html)\n" \| sort >> capybara_${{ github.event.pull_request.number }}.md
	echo "<sup><sub>Last updated $(TZ=America/New_York date -Iminutes) ${{github.event.pull_request.head.sha}}</sub></sup>" >> capybara_${{ github.event.pull_request.number }}.md
	- name: Create capybara step summary
	if: ${{ github.event_name == 'pull_request' }}
	run: \|
	cat capybara_${{ github.event.pull_request.number }}.md >> $GITHUB_STEP_SUMMARY
	- name: Upload capybara summary
	if: ${{ github.event_name == 'pull_request' }}
	uses: actions/upload-artifact@v4
	with:
	name: capybara_${{ github.event.pull_request.number }}.md
	path: capybara_${{ github.event.pull_request.number }}.md

	deploy-docs:
	needs:
	- collect-docs
	permissions:
	pages: write
	id-token: write
	pull-requests: write
	environment:
	name: github-pages
	url: ${{ steps.deployment.outputs.page_url }}
	runs-on: ubuntu-latest
	steps:
	- name: Deploy to GitHub Pages
	id: deployment
	uses: actions/deploy-pages@v4
	- name: Find capybara comment
	if: ${{ github.event_name == 'pull_request' }}
	id: find_comment
	uses: peter-evans/find-comment@v3
	with:
	issue-number: ${{ github.event.pull_request.number }}
	comment-author: 'github-actions[bot]'
	body-includes: Capybara summary
	- name: Fetch capybara summary
	if: ${{ github.event_name == 'pull_request' }}
	uses: actions/download-artifact@v4
	with:
	name: capybara_${{ github.event.pull_request.number }}.md
	- name: Create or update capybara comment
	if: ${{ github.event_name == 'pull_request' }}
	uses: peter-evans/create-or-update-comment@v4
	with:
	comment-id: ${{ steps.find_comment.outputs.comment-id }}
	issue-number: ${{ github.event.pull_request.number }}
	body-file: capybara_${{ github.event.pull_request.number }}.md
	edit-mode: replace

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