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
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
|
# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import os
from spack.package import *
class Adios2(CMakePackage, CudaPackage):
"""The Adaptable Input Output System version 2,
developed in the Exascale Computing Program"""
homepage = "https://csmd.ornl.gov/software/adios2"
url = "https://github.com/ornladios/ADIOS2/archive/v2.8.0.tar.gz"
git = "https://github.com/ornladios/ADIOS2.git"
maintainers("ax3l", "vicentebolea", "williamfgc")
tags = ["e4s"]
version("master", branch="master")
version(
"2.9.1",
sha256="ddfa32c14494250ee8a48ef1c97a1bf6442c15484bbbd4669228a0f90242f4f9",
preferred=True,
)
version("2.9.0", sha256="69f98ef58c818bb5410133e1891ac192653b0ec96eb9468590140f2552b6e5d1")
version("2.8.3", sha256="4906ab1899721c41dd918dddb039ba2848a1fb0cf84f3a563a1179b9d6ee0d9f")
version("2.8.2", sha256="9909f6409dc44b2c28c1fda0042dab4b711f25ec3277ef0cb6ffc40f5483910d")
version("2.8.1", sha256="3f515b442bbd52e3189866b121613fe3b59edb8845692ea86fad83d1eba35d93")
version("2.8.0", sha256="5af3d950e616989133955c2430bd09bcf6bad3a04cf62317b401eaf6e7c2d479")
version("2.7.1", sha256="c8e237fd51f49d8a62a0660db12b72ea5067512aa7970f3fcf80b70e3f87ca3e")
version("2.7.0", sha256="4b5df1a1f92d7ff380416dec7511cfcfe3dc44da27e486ed63c3e6cffb173924")
version("2.6.0", sha256="45b41889065f8b840725928db092848b8a8b8d1bfae1b92e72f8868d1c76216c")
version("2.5.0", sha256="7c8ff3bf5441dd662806df9650c56a669359cb0185ea232ecb3578de7b065329")
version("2.4.0", sha256="50ecea04b1e41c88835b4b3fd4e7bf0a0a2a3129855c9cc4ba6cf6a1575106e2")
version("2.3.1", sha256="3bf81ccc20a7f2715935349336a76ba4c8402355e1dc3848fcd6f4c3c5931893")
# There's not really any consistency about how static and shared libs are
# implemented across spack. What we're trying to support is specifically three
# library build types:
# shared (which is implicitly w/ pic)
# Implemented by +shared +pic
# static w/o pic
# Implemented by ~shared ~pic
# static w/ pic
# Implemented by ~shared +pic
# shared w/o pic is not a valid configuration because shared libraries are Position
# Independent # Code by design. We're not inherently tied to this approach and can
# change how we're supporting differnt library types in the package at anytime if
# spack decides on a standardized way of doing it across packages
variant("shared", default=True, when="+pic", description="Build shared libraries")
# Features
variant("mpi", default=True, description="Enable MPI")
# Compression libraries
variant(
"libpressio", default=False, when="@2.8:", description="Enable LibPressio for compression"
)
variant("blosc", default=True, when="@2.4:", description="Enable Blosc compression")
variant("bzip2", default=True, when="@2.4:", description="Enable BZip2 compression")
variant("zfp", default=True, description="Enable ZFP compression")
variant("png", default=True, when="@2.4:", description="Enable PNG compression")
variant("sz", default=True, description="Enable SZ compression")
variant("mgard", default=True, when="@2.8:", description="Enable MGARD compression")
# Rransport engines
variant("sst", default=True, description="Enable the SST staging engine")
variant(
"dataman",
default=False,
when="+shared",
description="Enable the DataMan engine for WAN transports",
)
variant("dataspaces", default=False, when="@2.5:", description="Enable support for DATASPACES")
variant("ssc", default=True, description="Enable the SSC staging engine")
variant("hdf5", default=False, description="Enable the HDF5 engine")
variant(
"aws",
default=False,
when="@2.9:",
description="Enable support for S3 compatible storage using AWS SDK's S3 module",
)
variant(
"libcatalyst",
default=True,
when="@2.9:",
description="Enable support for in situ visualization plugin using ParaView Catalyst",
)
# Optional language bindings, C++11 and C always provided
variant("cuda", default=False, when="@2.8:", description="Enable CUDA support")
variant("python", default=False, description="Enable the Python bindings")
variant("fortran", default=True, description="Enable the Fortran bindings")
# Requires mature C++11 implementations
conflicts("%gcc@:4.7")
conflicts("%intel@:15")
conflicts("%pgi@:14")
# ifx does not support submodules in separate files
conflicts("%oneapi@:2022.1.0", when="+fortran")
depends_on("cmake@3.12.0:", type="build")
for _platform in ["linux", "darwin", "cray"]:
depends_on("pkgconfig", type="build", when="platform=%s" % _platform)
variant(
"pic",
default=False,
description="Build pic-enabled static libraries",
when="platform=%s" % _platform,
)
# libffi and libfabric and not currently supported on Windows
# see Paraview's superbuild handling of libfabric at
# https://gitlab.kitware.com/paraview/paraview-superbuild/-/blob/master/projects/adios2.cmake#L3
depends_on("libffi", when="+sst platform=%s" % _platform) # optional in DILL
depends_on(
"libfabric@1.6.0:", when="+sst platform=%s" % _platform
) # optional in EVPath and SST
# depends_on('bison', when='+sst') # optional in FFS, broken package
# depends_on('flex', when='+sst') # optional in FFS, depends on BISON
depends_on("mpi", when="+mpi")
depends_on("libzmq", when="+dataman")
depends_on("dataspaces@1.8.0:", when="+dataspaces")
depends_on("hdf5~mpi", when="+hdf5~mpi")
depends_on("hdf5+mpi", when="+hdf5+mpi")
depends_on("libpressio", when="+libpressio")
depends_on("c-blosc", when="@:2.8 +blosc")
depends_on("c-blosc2", when="@2.9: +blosc")
depends_on("bzip2", when="+bzip2")
depends_on("libpng@1.6:", when="+png")
depends_on("zfp@0.5.1:0.5", when="+zfp")
depends_on("sz@2.0.2.0:", when="+sz")
depends_on("mgard", when="+mgard")
extends("python", when="+python")
depends_on("python@2.7:2.8,3.5:", when="@:2.4.0 +python", type=("build", "run"))
depends_on("python@2.7:2.8,3.5:", when="@:2.4.0", type="test")
depends_on("python@3.5:", when="@2.5.0: +python", type=("build", "run"))
depends_on("python@3.5:", when="@2.5.0:", type="test")
depends_on("py-numpy@1.6.1:", when="+python", type=("build", "run"))
depends_on("py-mpi4py@2.0.0:", when="+mpi +python", type=("build", "run"))
depends_on("aws-sdk-cpp", when="+aws")
depends_on("libcatalyst@2", when="+libcatalyst")
# Fix findmpi when called by dependees
# See https://github.com/ornladios/ADIOS2/pull/1632
patch("cmake-update-findmpi.patch", when="@2.4.0")
# Fix the signature of the builtin clear_cache function in the
# third-party dill library.
# See https://github.com/ornladios/ADIOS2/pull/1899
patch("2.5-fix-clear_cache.patch", when="@2.5.0")
# Fix an unnecessary python dependency when testing is disabled
# See https://github.com/ornladios/ADIOS2/pull/2596
patch("2.7-fix-python-test-deps.patch", when="@2.5.0:2.7.0")
# Fix unresolved symbols when built with gcc10.
# See https://github.com/ornladios/ADIOS2/pull/2714
patch("2.6-fix-gcc10-symbols.patch", when="@2.6.0")
# Add missing include <memory>
# https://github.com/ornladios/adios2/pull/2710
patch(
"https://github.com/ornladios/adios2/pull/2710.patch?full_index=1",
when="@:2.7.1",
sha256="8221073d1b2f8944395a88a5d60a15c7370646b62f5fc6309867bbb6a8c2096c",
)
@when("%fj")
def patch(self):
"""add fujitsu mpi commands #16864"""
f = join_path("cmake", "upstream", "FindMPI.cmake")
filter_file("mpcc_r)", "mpcc_r mpifcc)", f, string=True)
filter_file("mpc++_r)", "mpcc_r mpiFCC)", f, string=True)
filter_file("mpf77_r", "mpf77_r mpifrt", f, string=True)
def setup_build_environment(self, env):
# https://github.com/ornladios/ADIOS2/issues/2228
if self.spec.satisfies("%gcc@10: +fortran"):
env.set("FFLAGS", "-fallow-argument-mismatch")
elif self.spec.satisfies("%fj +fortran"):
env.set("FFLAGS", "-Ccpp")
def cmake_args(self):
spec = self.spec
from_variant = self.define_from_variant
args = [
from_variant("CMAKE_POSITION_INDEPENDENT_CODE", "pic"),
from_variant("BUILD_SHARED_LIBS", "shared"),
from_variant("ADIOS2_USE_AWSSDK", "aws"),
from_variant("ADIOS2_USE_Blosc", "blosc"),
from_variant("ADIOS2_USE_BZip2", "bzip2"),
from_variant("ADIOS2_USE_DataMan", "dataman"),
from_variant("ADIOS2_USE_DataSpaces", "dataspaces"),
from_variant("ADIOS2_USE_Fortran", "fortran"),
from_variant("ADIOS2_USE_HDF5", "hdf5"),
from_variant("ADIOS2_USE_MPI", "mpi"),
from_variant("ADIOS2_USE_PNG", "png"),
from_variant("ADIOS2_USE_Python", "python"),
from_variant("ADIOS2_USE_SSC", "ssc"),
from_variant("ADIOS2_USE_SST", "sst"),
from_variant("ADIOS2_USE_SZ", "sz"),
from_variant("ADIOS2_USE_ZFP", "zfp"),
from_variant("ADIOS2_USE_CUDA", "cuda"),
from_variant("ADIOS2_USE_Catalyst", "libcatalyst"),
from_variant("ADIOS2_USE_LIBPRESSIO", "libpressio"),
self.define("BUILD_TESTING", self.run_tests),
self.define("ADIOS2_BUILD_EXAMPLES", False),
self.define("ADIOS2_USE_Endian_Reverse", True),
self.define("ADIOS2_USE_IME", False),
self.define("ADIOS2_USE_MGARD", False),
]
if "+sst" in spec:
args.extend(
[
# Broken dependency package
"-DCMAKE_DISABLE_FIND_PACKAGE_BISON=TRUE",
# Depends on ^
"-DCMAKE_DISABLE_FIND_PACKAGE_FLEX=TRUE",
# Not yet packaged
"-DCMAKE_DISABLE_FIND_PACKAGE_CrayDRC=TRUE",
"-DCMAKE_DISABLE_FIND_PACKAGE_NVSTREAM=TRUE",
]
)
if "%fj" in spec:
args.extend(["-DCMAKE_Fortran_SUBMODULE_EXT=.smod", "-DCMAKE_Fortran_SUBMODULE_SEP=."])
if "+python" in spec or self.run_tests:
args.append("-DPYTHON_EXECUTABLE:FILEPATH=%s" % spec["python"].command.path)
args.append("-DPython_EXECUTABLE:FILEPATH=%s" % spec["python"].command.path)
return args
@property
def libs(self):
spec = self.spec
libs_to_seek = set()
if "@2.6:" in spec:
libs_to_seek.add("libadios2_core")
libs_to_seek.add("libadios2_c")
libs_to_seek.add("libadios2_cxx11")
if "+fortran" in spec:
libs_to_seek.add("libadios2_fortran")
if "+mpi" in spec:
libs_to_seek.add("libadios2_core_mpi")
libs_to_seek.add("libadios2_c_mpi")
libs_to_seek.add("libadios2_cxx11_mpi")
if "+fortran" in spec:
libs_to_seek.add("libadios2_fortran_mpi")
if "@2.7: +shared+hdf5" in spec and "@1.12:" in spec["hdf5"]:
libs_to_seek.add("libadios2_h5vol")
else:
libs_to_seek.add("libadios2")
if "+fortran" in spec:
libs_to_seek.add("libadios2_fortran")
return find_libraries(
list(libs_to_seek), root=self.spec.prefix, shared=("+shared" in spec), recursive=True
)
def setup_run_environment(self, env):
try:
all_libs = self.libs
idx = all_libs.basenames.index("libadios2_h5vol.so")
env.prepend_path("HDF5_PLUGIN_PATH", os.path.dirname(all_libs[idx]))
except ValueError:
pass
|