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Merge remote-tracking branch 'jcsda/develop' into feature/MET_METp_3.1.1
* jcsda/develop: Bump Python to 3.11.7 (JCSDA#1217) Add a clause in the cleanup to fix directory permissions (JCSDA#1273) Bug fix: configure neptune-env variants in three templates: neptune-dev, skylab-dev, unified-dev (JCSDA#1268) Update site configs for Atlantis, Narwhal, Nautilus (JCSDA#1266) Configuration for [email protected] and [email protected] (JCSDA#1240)
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@@ -20,6 +20,7 @@ jobs: | |
run: | | ||
pwd | ||
ls -lart | ||
find ./* -type d -exec chmod u+xw {} \; | ||
rm -fr * | ||
- name: checkout | ||
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@@ -20,6 +20,7 @@ jobs: | |
run: | | ||
pwd | ||
ls -lart | ||
find ./* -type d -exec chmod u+xw {} \; | ||
rm -fr * | ||
- name: checkout | ||
|
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@@ -20,6 +20,7 @@ jobs: | |
run: | | ||
pwd | ||
ls -lart | ||
find ./* -type d -exec chmod u+xw {} \; | ||
rm -fr * | ||
- name: checkout | ||
|
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@@ -20,6 +20,7 @@ jobs: | |
run: | | ||
pwd | ||
ls -lart | ||
find ./* -type d -exec chmod u+xw {} \; | ||
rm -fr * | ||
- name: checkout | ||
|
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@@ -122,10 +122,11 @@ packages: | |
externals: | ||
- spec: [email protected]+lex | ||
prefix: /usr | ||
openssl: | ||
externals: | ||
- spec: [email protected] | ||
prefix: /usr | ||
# Can no longer use, issues with py-cryptography | ||
#openssl: | ||
# externals: | ||
# - spec: [email protected] | ||
# prefix: /usr | ||
gawk: | ||
externals: | ||
- spec: [email protected] | ||
|
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@@ -14,27 +14,30 @@ compilers:: | |
modules: | ||
- PrgEnv-intel/8.3.3 | ||
- intel-classic/2023.2.0 | ||
- cray-libsci/23.05.1.4 | ||
- libfabric/1.12.1.2.2.1 | ||
environment: | ||
prepend_path: | ||
PATH: '/opt/cray/pe/gcc/10.3.0/snos/bin' | ||
CPATH: '/opt/cray/pe/gcc/10.3.0/snos/include' | ||
LD_LIBRARY_PATH: '/opt/cray/libfabric/1.12.1.2.2.1/lib64:/opt/cray/pe/libsci/22.11.1.2/INTEL/19.0/x86_64/lib:/opt/cray/pe/gcc/10.3.0/snos/lib:/opt/cray/pe/gcc/10.3.0/snos/lib64' | ||
LD_LIBRARY_PATH: '/opt/cray/libfabric/1.12.1.2.2.1/lib64:/opt/cray/pe/libsci/23.05.1.4/INTEL/2022.2/x86_64/lib:/opt/cray/pe/gcc/10.3.0/snos/lib:/opt/cray/pe/gcc/10.3.0/snos/lib64' | ||
set: | ||
CRAYPE_LINK_TYPE: 'dynamic' | ||
extra_rpaths: [] | ||
- compiler: | ||
spec: [email protected] | ||
paths: | ||
cc: cc | ||
cxx: CC | ||
f77: ftn | ||
fc: ftn | ||
cc: /opt/cray/pe/gcc/10.3.0/bin/gcc | ||
cxx: /opt/cray/pe/gcc/10.3.0/bin/g++ | ||
f77: /opt/cray/pe/gcc/10.3.0/bin/gfortran | ||
fc: /opt/cray/pe/gcc/10.3.0/bin/gfortran | ||
flags: {} | ||
operating_system: sles15 | ||
modules: | ||
- PrgEnv-gnu/8.3.3 | ||
- gcc/10.3.0 | ||
- cray-libsci/22.11.1.2 | ||
- libfabric/1.12.1.2.2.1 | ||
environment: | ||
prepend_path: | ||
LD_LIBRARY_PATH: '/opt/cray/libfabric/1.12.1.2.2.1/lib64:/opt/cray/pe/libsci/22.11.1.2/GNU/9.1/x86_64/lib' | ||
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@@ -7,7 +7,7 @@ packages: | |
buildable: False | ||
cray-mpich: | ||
externals: | ||
- spec: [email protected]%[email protected] ~wrappers | ||
- spec: [email protected]%[email protected] +wrappers | ||
modules: | ||
- cray-mpich-ucx/8.1.21 | ||
- craype-network-ucx |
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@@ -1,8 +1,17 @@ | ||
packages: | ||
# On Nautilus, use intel-oneapi-mkl as provider | ||
# for blas, lapack, fftw-api with GNU because of | ||
# problems using openblas in downstream applications | ||
# (e.g. py-pandas): | ||
# ELF load command address/offset not properly aligned" when loading libopenblas.so | ||
# https://github.com/OpenMathLib/OpenBLAS/wiki/Faq#ELFoffset | ||
all: | ||
compiler:: [[email protected]] | ||
providers: | ||
mpi:: [[email protected]] | ||
blas:: [intel-oneapi-mkl] | ||
fftw-api:: [intel-oneapi-mkl] | ||
lapack:: [intel-oneapi-mkl] | ||
mpi: | ||
buildable: False | ||
openmpi: | ||
|
@@ -12,3 +21,14 @@ packages: | |
modules: | ||
- penguin/openmpi/5.0.1/gcc-8.5.0 | ||
- slurm | ||
openblas: | ||
buildable: False | ||
ectrans: | ||
require:: | ||
- '@1.2.0 +mkl ~fftw' | ||
gsibec: | ||
require:: | ||
- '@1.2.1 +mkl' | ||
py-numpy: | ||
require:: | ||
- '@:1.25 ^intel-oneapi-mkl' |
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@@ -8,7 +8,7 @@ spack: | |
definitions: | ||
- compilers: ['%aocc', '%apple-clang', '%gcc', '%intel', '%oneapi'] | ||
- packages: | ||
- neptune-env +python ^[email protected] snapshot=b11 | ||
- neptune-env +espc +python +xnrl ^[email protected] snapshot=b11 | ||
|
||
specs: | ||
- matrix: | ||
|
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@@ -20,12 +20,14 @@ class JediBaseEnv(BundlePackage): | |
# Need to find a free fftw provider for fftw-api ... | ||
variant("fftw", default=True, description="Build fftw") | ||
variant("hdf4", default=True, description="Build hdf4 library and python hdf module") | ||
variant("bufrquery", default=True, description="Build bufr-query library") | ||
|
||
depends_on("base-env", type="run") | ||
depends_on("bison", type="run") | ||
depends_on("blas", type="run") | ||
depends_on("boost", type="run") | ||
depends_on("bufr", type="run") | ||
depends_on("bufr-query", when="+bufrquery", type="run") | ||
# Force users to load manually | ||
# depends_on("[email protected]", type="run") | ||
depends_on("ecbuild", type="run") | ||
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