-
Notifications
You must be signed in to change notification settings - Fork 44
192 lines (164 loc) · 9.02 KB
/
ubuntu-ci-x86_64.yaml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
name: ubuntu-ci-x86_64-build
on:
pull_request:
paths-ignore:
- 'doc/**'
- '**.md'
- '.github/ISSUE_TEMPLATE/*'
- '.gitignore'
workflow_dispatch:
concurrency:
group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
cancel-in-progress: true
defaults:
run:
shell: bash
jobs:
ubuntu-ci-x86_64-build:
runs-on: [ubuntu-ci-x86_64]
steps:
- name: cleanup
run: |
pwd
ls -lart
rm -fr *
- name: checkout
uses: actions/checkout@v3
with:
submodules: true
- name: create-env
run: |
source ./setup.sh
# DH* 20230302 - to avoid using padded_length for build caches,
# always build in the same environment so that the length of the
# path doesn't change - see also other 'DH* 20230302' changes below
#export ENVNAME=${{ inputs.template || 'unified-dev' }}.ubuntu-ci-x86_64
export ENVNAME=ci-env.ubuntu-ci-x86_64
# *DH
export ENVDIR=$PWD/envs/${ENVNAME}
spack stack create env --site linux.default --template ${{ inputs.template || 'unified-dev' }} --name ${ENVNAME}
spack env activate ${ENVDIR}
spack add ${{ inputs.specs || '' }}
export SPACK_SYSTEM_CONFIG_PATH="${ENVDIR}/site"
# Find external packages
spack external find --scope system \
--exclude bison --exclude openssl \
--exclude curl --exclude python
spack external find --scope system sed
spack external find --scope system perl
spack external find --scope system wget
PATH="/usr/local/opt/qt5/bin:$PATH" \
spack external find --scope system qt
spack external find --scope system texlive
spack external find --scope system mysql
# For GNU
# MISSING
# For Intel
# Need to find external Intel MPI and annotate with the
# correct compiler, no way to do that with spack commands.
echo "" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " intel-oneapi-mpi:" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " buildable: false" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " externals:" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " - spec: [email protected]%[email protected]" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " prefix: /opt/intel" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " modules:" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " - libfabric-aws/1.16.0~amzn4.0" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
echo " - intelmpi" >> ${SPACK_SYSTEM_CONFIG_PATH}/packages.yaml
# For GNU
## Find compilers
#spack compiler find --scope system
# For Intel
echo "" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo "compilers:" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo "- compiler:" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " spec: [email protected]" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " paths:" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " cc: /opt/intel/oneapi/compiler/2022.1.0/linux/bin/intel64/icc" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " cxx: /opt/intel/oneapi/compiler/2022.1.0/linux/bin/intel64/icpc" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " f77: /opt/intel/oneapi/compiler/2022.1.0/linux/bin/intel64/ifort" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " fc: /opt/intel/oneapi/compiler/2022.1.0/linux/bin/intel64/ifort" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " flags: {}" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " operating_system: ubuntu20.04" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " target: x86_64" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " modules: []" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " environment:" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " prepend_path:" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " LD_LIBRARY_PATH: '/opt/intel/oneapi/compiler/2022.1.0/linux/compiler/lib/intel64_lin'" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " set:" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " I_MPI_PMI_LIBRARY: '/opt/slurm/lib/libpmi.so'" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
echo " extra_rpaths: []" >> ${SPACK_SYSTEM_CONFIG_PATH}/compilers.yaml
export -n SPACK_SYSTEM_CONFIG_PATH
# DH* 20230302 - Don't use yet, too many problems
## For buildcaches
#spack config add config:install_tree:padded_length:true
# *DH
# Set compiler and MPI
spack config add "packages:all:providers:mpi:[[email protected]]"
spack config add "packages:all:compiler:[[email protected]]"
sed -i "s/\['\%aocc', '\%apple-clang', '\%gcc', '\%intel'\]/\['\%intel'\]/g" $ENVDIR/spack.yaml
# Add additional variants for MET packages, different from config/common/packages.yaml
spack config add "packages:met:variants:+python +grib2 +graphics +lidar2nc +modis"
# Concretize and check for duplicates
spack concretize 2>&1 | tee log.concretize.intel-2021.6.0
${SPACK_STACK_DIR}/util/show_duplicate_packages.py -d log.concretize.intel-2021.6.0 -i fms -i crtm -i esmf -i mapl
# Add and update source cache
spack mirror add local-source file:///home/ubuntu/spack-stack/source-cache/
spack mirror create -a -d /home/ubuntu/spack-stack/source-cache/
# Add binary cache and reindex it
spack mirror add local-binary file:///home/ubuntu/spack-stack/build-cache/
spack buildcache update-index local-binary
echo "Packages in combined spack build caches:"
spack buildcache list
# Break installation up in pieces and create build caches in between
# This allows us to "spin up" builds that altogether take longer than
# six hours, and/or fail later in the build process.
# base-env
echo "base-env ..."
spack install --fail-fast --source --no-check-signature base-env 2>&1 | tee log.install.intel-2021.6.0.base-env
spack buildcache create -a -u /home/ubuntu/spack-stack/build-cache/ base-env
# the rest
echo "${{ inputs.template || 'unified-dev' }} ..."
spack install --fail-fast --source --no-check-signature 2>&1 | tee [email protected].${{ inputs.template || 'unified-dev' }}
spack buildcache create -a -u /home/ubuntu/spack-stack/build-cache/
# Next steps: synchronize source and build cache to a central/combined mirror?
echo "Next steps ..."
${SPACK_STACK_DIR}/util/ldd_check.py $SPACK_ENV 2>&1 | tee log.ldd_check
spack clean -a
spack module tcl refresh -y
spack stack setup-meta-modules
spack env deactivate
# Test environment chaining
echo "Test environment chaining"
spack stack create env --name chaintest --template empty --site linux.default --upstream $(realpath envs/ci-env.ubuntu-ci-x86_64/install)
# Retain config from upstream so we don't have to rebuild:
cp -r $PWD/envs/ci-env.ubuntu-ci-x86_64/{site,common} $PWD/envs/chaintest/.
spack env activate ${PWD}/envs/chaintest
spack add [email protected]%intel
spack concretize | tee envs/chaintest/log.concretize
unwanted_duplicates=$(( cat envs/chaintest/log.concretize | grep -E '^ - ' | grep -Fv '[email protected]' || true ) | wc -l)
if [ ${unwanted_duplicates} -gt 0 ]; then echo "Environment chaining test failed"; exit 1; fi
spack env deactivate
- name: test-env
run: |
source /etc/profile.d/z00_lmod.sh
module use /usr/share/modules/modulefiles
module use /opt/intel/mpi/2021.6.0/modulefiles
module use /home/ubuntu/jedi/modulefiles
# DH* 20230302 - to avoid using padded_length for build caches,
# always build in the same environment so that the length of the
# path doesn't change - see also other 'DH* 20230302' changes below
#export ENVNAME=${{ inputs.template || 'unified-dev' }}.ubuntu-ci-x86_64
export ENVNAME=ci-env.ubuntu-ci-x86_64
# *DH
export ENVDIR=$PWD/envs/${ENVNAME}
ls -l ${ENVDIR}/install/modulefiles/Core
module use ${ENVDIR}/install/modulefiles/Core
module load stack-intel/2021.6.0
module load stack-intel-oneapi-mpi/2021.6.0
module load stack-python/3.10.13
module available
module load jedi-ufs-env/1.0.0
module load ewok-env/1.0.0
module load soca-env/1.0.0
module list