def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
k = kokkos(...)
Stage0 += k
Stage1 += k.runtime()
```
"""
instructions = []
instructions.append(comment('Kokkos'))
instructions.append(
copy(_from=_from, src=self.__prefix, dest=self.__prefix))
instructions.append(environment(variables=self.environment_step()))
return '\n'.join(str(x) for x in instructions)
def __instructions(self):
"""Fill in container instructions"""
if self.__directory:
self += comment('HDF5')
else:
self += comment('HDF5 version {}'.format(self.__version))
self += packages(ospackages=self.__ospackages)
if self.__directory:
# Use source from local build context
self += copy(src=self.__directory,
dest=posixpath.join(self.__wd, self.__directory))
self += shell(commands=self.__commands)
if self.__environment_variables:
self += environment(variables=self.__environment_variables)
def __instructions(self):
"""Fill in container instructions"""
if self.__comment:
if self.url:
self += comment(self.url, reformat=False)
elif self.repository:
self += comment(self.repository, reformat=False)
elif self.package:
self += comment(self.package, reformat=False)
if self.package:
self += copy(src=self.package,
dest=posixpath.join(self.__wd,
os.path.basename(self.package)))
self += shell(_arguments=self.__run_arguments,
commands=self.__commands)
self += environment(variables=self.environment_step())
self += label(metadata=self.annotate_step())
def __instructions(self):
"""Fill in container instructions"""
comments = ['NetCDF version {}'.format(self.__version)]
if self.__cxx:
comments.append('NetCDF C++ version {}'.format(self.__version_cxx))
if self.__fortran:
comments.append('NetCDF Fortran version {}'.format(
self.__version_fortran))
self += comment(', '.join(comments))
if self.__ospackages:
self += packages(ospackages=self.__ospackages)
self += shell(commands=self.__commands)
if self.__environment_variables:
self += environment(variables=self.__environment_variables)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
p = pnetcdf(...)
Stage0 += p
Stage1 += p.runtime()
```
"""
instructions = []
instructions.append(comment('PnetCDF'))
instructions.append(
copy(_from=_from, src=self.prefix, dest=self.prefix))
instructions.append(
environment(variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
n = nvshmem(...)
Stage0 += n
Stage1 += n.runtime()
```
"""
self.rt += comment('NVSHMEM')
if self.__binary_tarball:
self.rt += copy(_from=_from, src=self.__prefix, dest=self.__prefix)
self.rt += environment(variables=self.environment_step())
else:
self.rt += self.__bb.runtime(_from=_from)
return str(self.rt)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
n = nccl(...)
Stage0 += n
Stage1 += n.runtime()
```
"""
self.rt += comment('NCCL')
if self.__build:
self.rt += copy(_from=_from, src=self.__prefix, dest=self.__prefix)
self.rt += environment(variables=self.environment_step())
else:
self.rt += packages(ospackages=self.__ospackages)
self.rt += packages(
apt=[
'libnccl2={0}+cuda{1}'.format(self.__version, self.__cuda)
],
apt_keys=[
'https://developer.download.nvidia.com/compute/machine-learning/repos/{0}/{1}/7fa2af80.pub'
.format(self.__distro_label, get_cpu_architecture())
],
apt_repositories=[
'deb https://developer.download.nvidia.com/compute/machine-learning/repos/{0}/{1} /'
.format(self.__distro_label, get_cpu_architecture())
],
yum=[
'libnccl-{0}+cuda{1}'.format(self.__version, self.__cuda)
],
yum_keys=[
'https://developer.download.nvidia.com/compute/machine-learning/repos/{0}/{1}/7fa2af80.pub'
.format(self.__distro_label, get_cpu_architecture())
],
yum_repositories=[
'https://developer.download.nvidia.com/compute/machine-learning/repos/{0}/{1}'
.format(self.__distro_label, get_cpu_architecture())
])
return str(self.rt)
def build(container_format='singularity',
gnu_version='9',
fermi_lite_version='0.1',
macs_version='3.0.0a5'):
image = 'ubuntu:20.04'
config.set_container_format(container_format)
stage0 = Stage(name='stage0')
stage0 += baseimage(image=image, _bootstrap='docker')
stage0 += label(metadata={
'maintainer': 'Luhan Cheng',
'email': '*****@*****.**'
})
stage0 += packages(apt=[
'wget', 'software-properties-common', 'build-essential', 'git',
'python-dev', 'zlib1g-dev'
])
compilers = gnu(version=gnu_version)
stage0 += compilers
stage0 += generic_build(repository='https://github.com/lh3/fermi-lite',
branch=f'v{fermi_lite_version}',
build=['make'],
install=[
'mkdir -p /usr/local/fermi_lite/',
'mv * /usr/local/fermi_lite/'
],
toolchain=compilers.toolchain)
stage0 += environment(
variables={
'PATH': '/usr/local/fermi_lite/:/usr/local/anaconda/bin:$PATH',
'LIBRARY_PATH': '/usr/local/fermi_lite/:$LIBRARY_PATH',
'C_INCLUDE_PATH': '/usr/local/fermi_lite/:$C_INCLUDE_PATH'
})
stage0 += conda(packages=['python=3.8', 'numpy', 'cython', 'cykhash'],
channels=['anaconda', 'conda-forge'],
eula=True)
stage0 += generic_build(
repository='https://github.com/macs3-project/MACS.git',
recursive=True,
branch=f'v{macs_version}',
build=['python3 setup.py install'],
)
return stage0
def __instructions(self):
"""Fill in container instructions"""
self += comment('Intel Parallel Studio XE runtime version {}'.format(self.__version))
if self.__ospackages:
self += packages(ospackages=self.__ospackages)
if not self.__eula:
raise RuntimeError('Intel EULA was not accepted. To accept, see the documentation for this building block')
# The APT keys expired and had to be reissued. They were only
# reissued for 2019 and later. Blindly (and insecurely!) trust
# the 2018 and earlier repositories.
if int(self.__year) >= 2019:
apt_keys = ['https://apt.repos.intel.com/intel-gpg-keys/GPG-PUB-KEY-INTEL-SW-PRODUCTS-{}.PUB'.format(self.__year)]
apt_repositories = ['deb https://apt.repos.intel.com/{0} intel-psxe-runtime main'.format(self.__year)]
else:
apt_keys = ['https://apt.repos.intel.com/{0}/GPG-PUB-KEY-INTEL-PSXE-RUNTIME-{0}'.format(self.__year)]
apt_repositories = ['deb [trusted=yes] https://apt.repos.intel.com/{0} intel-psxe-runtime main'.format(self.__year)]
self += packages(
apt=self.__apt,
apt_keys=apt_keys,
apt_repositories=apt_repositories,
aptitude=True,
yum=self.__yum,
yum_keys=['https://yum.repos.intel.com/{0}/setup/RPM-GPG-KEY-intel-psxe-runtime-{0}'.format(self.__year)],
yum_repositories=['https://yum.repos.intel.com/{0}/setup/intel-psxe-runtime-{0}.repo'.format(self.__year)],
yum4=True)
# Set the environment
if self.__psxevars:
# Source the psxevars environment script when starting the
# container, but the variables not be available for any
# subsequent build steps.
self += shell(commands=['echo "source /opt/intel/psxe_runtime/linux/bin/psxevars.sh intel64" >> {}'.format(self.__bashrc)])
else:
# Set the environment so that it will be available to
# subsequent build steps and when starting the container,
# but this may miss some things relative to the psxevars
# environment script.
self += environment(variables=self.environment_step())
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
o = openmpi(...)
Stage0 += o
Stage1 += o.runtime()
```
"""
instructions = []
instructions.append(comment('OpenMPI'))
instructions.append(packages(ospackages=self.__runtime_ospackages))
instructions.append(copy(_from=_from, src=self.prefix,
dest=self.prefix))
instructions.append(environment(
variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Example
```python
c = charm(...)
Stage0 += c
Stage1 += c.runtime()
```
"""
instructions = []
instructions.append(comment('Charm++'))
instructions.append(copy(_from=_from, src=self.__installdir,
dest=self.__installdir))
instructions.append(environment(
variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def __instructions(self):
"""Fill in container instructions"""
self += comment('NVIDIA HPC SDK version {}'.format(self.__version))
if self.package:
# Use package from local build context
self += copy(src=self.package,
dest=posixpath.join(self.__wd,
posixpath.basename(self.package)))
if self.__ospackages:
self += packages(ospackages=self.__ospackages)
if self.package or self.__tarball or self.__url:
# tarball install
self += shell(commands=self.__commands)
else:
# repository install
self += packages(
apt_repositories=['deb [trusted=yes] https://developer.download.nvidia.com/hpc-sdk/ubuntu/{} /'.format(self.__arch_label)],
ospackages=[self.__nvhpc_package],
yum_repositories=['https://developer.download.nvidia.com/hpc-sdk/rhel/nvhpc.repo'])
if self.__toolchain:
# Regenerate the localrc using the compilers from the specified
# toolchain
compiler_bin = posixpath.join(self.__basepath, 'compilers', 'bin')
args = ['-x']
if self.__toolchain.CC:
args.append('-gcc {}'.format(self.__toolchain.CC))
if self.__toolchain.CXX:
args.append('-gpp {}'.format(self.__toolchain.CXX))
if self.__toolchain.F77:
args.append('-g77 {}'.format(self.__toolchain.F77))
self += shell(commands=['{0} {1} {2}'.format(
posixpath.join(compiler_bin, 'makelocalrc'), compiler_bin,
' '.join(args))])
self += environment(variables=self.environment_step())
def __instructions(self):
"""Fill in container instructions"""
self += comment('Intel MPI version {}'.format(self.__version))
if self.__ospackages:
self += packages(ospackages=self.__ospackages)
if not self.__eula:
raise RuntimeError('Intel EULA was not accepted. To accept, see the documentation for this building block')
self += packages(
apt_keys=['https://apt.repos.intel.com/intel-gpg-keys/GPG-PUB-KEY-INTEL-SW-PRODUCTS-{}.PUB'.format(self.__year)],
apt_repositories=['deb https://apt.repos.intel.com/mpi all main'],
ospackages=['intel-mpi-{}'.format(self.__version)],
yum_keys=['https://yum.repos.intel.com/intel-gpg-keys/GPG-PUB-KEY-INTEL-SW-PRODUCTS-{}.PUB'.format(self.__year)],
yum_repositories=['https://yum.repos.intel.com/mpi/setup/intel-mpi.repo'])
# Set the environment
if self.__mpivars:
# Source the mpivars environment script when starting the
# container, but the variables not be available for any
# subsequent build steps.
self += shell(commands=['echo "source /opt/intel/compilers_and_libraries/linux/mpi/intel64/bin/mpivars.sh intel64" >> {}'.format(self.__bashrc)])
else:
# Set the environment so that it will be available to
# subsequent build steps and when starting the container,
# but this may miss some things relative to the mpivars
# environment script.
if LooseVersion(self.__version) >= LooseVersion('2019.0'):
self.environment_variables={
'FI_PROVIDER_PATH': '/opt/intel/compilers_and_libraries/linux/mpi/intel64/libfabric/lib/prov',
'I_MPI_ROOT': '/opt/intel/compilers_and_libraries/linux/mpi',
'LD_LIBRARY_PATH': '/opt/intel/compilers_and_libraries/linux/mpi/intel64/lib:/opt/intel/compilers_and_libraries/linux/mpi/intel64/libfabric/lib:$LD_LIBRARY_PATH',
'PATH': '/opt/intel/compilers_and_libraries/linux/mpi/intel64/bin:/opt/intel/compilers_and_libraries/linux/mpi/intel64/libfabric/bin:$PATH'}
else:
self.environment_variables={
'I_MPI_ROOT': '/opt/intel/compilers_and_libraries/linux/mpi',
'LD_LIBRARY_PATH': '/opt/intel/compilers_and_libraries/linux/mpi/intel64/lib:$LD_LIBRARY_PATH',
'PATH': '/opt/intel/compilers_and_libraries/linux/mpi/intel64/bin:$PATH'}
self += environment(variables=self.environment_step())
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
g = gnu(...)
Stage0 += g
Stage1 += g.runtime()
```
"""
instructions = []
instructions.append(comment('GNU compiler runtime'))
if self.__source:
instructions.append(
copy(_from=_from,
dest=posixpath.join(self.prefix, 'lib64'),
src=posixpath.join(self.prefix, 'lib64')))
if self.ldconfig:
instructions.append(
shell(commands=[
self.ldcache_step(
directory=posixpath.join(self.prefix, 'lib64'))
]))
else:
instructions.append(
environment(
variables={
'LD_LIBRARY_PATH':
'{}:$LD_LIBRARY_PATH'.format(
posixpath.join(self.prefix, 'lib64'))
}))
else:
instructions.append(
packages(
apt=self.__runtime_debs,
apt_ppas=self.__extra_repo_apt,
scl=bool(self.__version), # True / False
yum=self.__runtime_rpms))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
c = catalyst(...)
Stage0 += c
Stage1 += c.runtime()
```
"""
self.rt += comment('ParaView Catalyst')
if self.__runtime_ospackages:
self.rt += packages(ospackages=self.__runtime_ospackages)
self.rt += copy(_from=_from, src=self.prefix, dest=self.prefix)
if self.ldconfig:
self.rt += shell(commands=[self.ldcache_step(
directory=posixpath.join(self.prefix, 'lib'))])
self.rt += environment(variables=self.environment_step())
return str(self.rt)
def __instructions(self):
"""Fill in container instructions"""
self += comment('Intel Parallel Studio XE')
self += packages(ospackages=self.__ospackages)
self += copy(src=self.__tarball,
dest=posixpath.join(self.__wd, self.__tarball_name))
if self.__license and not '@' in self.__license:
# License file
self += copy(src=self.__license,
dest=posixpath.join(self.__wd, 'license.lic'))
self += shell(commands=self.__commands)
if self.__psxevars:
# Source the mpivars environment script when starting the
# container, but the variables not be available for any
# subsequent build steps.
self += shell(commands=['echo "source {0}/compilers_and_libraries/linux/bin/compilervars.sh intel64" >> {1}'.format(self.__prefix, self.__bashrc)])
else:
self += environment(variables=self.environment_step())
def __str__(self):
"""String representation of the building block"""
instructions = []
if self.directory:
instructions.append(comment('OpenMPI'))
else:
instructions.append(
comment('OpenMPI version {}'.format(self.version)))
instructions.append(packages(ospackages=self.__ospackages))
if self.directory:
# Use source from local build context
instructions.append(
copy(src=self.directory,
dest=os.path.join(self.__wd, self.directory)))
instructions.append(shell(commands=self.__commands))
instructions.append(
environment(variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def __instructions_runfile(self):
"""Fill in container instructions"""
pkg = os.path.basename(self.__runfile)
install_cmds = [
'sh ./{} --nox11 -- -noprompt -targetpath={}'.format(
pkg, self.__prefix)
]
# Commands needed to predeploy target-specific files. When
# connecting through the GUI on another machine to the
# container, this removes the need to copy the files over.
install_cmds += [
'mkdir -p /tmp/var/target',
'ln -sf {}/target/* /tmp/var/target'.format(self.__prefix),
'ln -sf {}/sections /tmp/var/'.format(self.__prefix),
'chmod -R a+w /tmp/var'
]
kwargs = {}
if self.__runfile.strip().startswith(('http://', 'https://')):
kwargs['url'] = self.__runfile
else:
kwargs['package'] = self.__runfile
self.__bb = generic_build(
annotations={'runfile': pkg},
base_annotation=self.__class__.__name__,
comment=False,
devel_environment={'PATH': '{}:$PATH'.format(self.__prefix)},
directory=self.__wd,
install=install_cmds,
unpack=False,
wd=self.__wd,
**kwargs)
self += comment('NVIDIA Nsight Compute {}'.format(pkg), reformat=False)
self += packages(ospackages=self.__ospackages)
self += self.__bb
self += environment(variables=self.environment_variables)
def test_allsections_docker(self):
"""One of each SCI-f section type"""
# See comment in the test_defaults_docker test case
scif_file = tempfile.NamedTemporaryFile(delete=False, suffix='.scif')
s = scif(name='foo', file=scif_file.name)
s += copy(src='file', dest='/tmp/file')
s += comment('My app')
s += environment(variables={'ONE': '1'})
s += label(metadata={'A': 'B'})
s += runscript(commands=['default_program'])
s += shell(commands=['build_cmds'])
s += shell(commands=['test_program'], _test=True)
str(s) # Force writing the SCI-F recipe file
# slurp file content
with open(scif_file.name) as f:
content = f.read()
os.unlink(scif_file.name)
self.assertEqual(
content, r'''%appenv foo
export ONE=1
%appfiles foo
file /tmp/file
%apphelp foo
My app
%appinstall foo
build_cmds
%applabels foo
A B
%apprun foo
exec default_program "$@"
%apptest foo
test_program''')
def __instructions(self):
self += comment(__doc__, reformat=False)
# https://github.com/bincrafters/community/issues/880
self += packages(ospackages=['pkg-config'])
# For building curl:
self += packages(ospackages=['autoconf-archive', 'libtool'])
conan_version = "1.22.2"
self += pip(pip='pip3', packages=['conan=={}'.format(conan_version)])
self += shell(commands=self.__commands)
if self.__user_home != '':
self += environment(
variables={'CONAN_USER_HOME': self.__user_home})
self += label(
metadata={
'org.opengeosys.pm': 'conan',
'org.opengeosys.pm.conan.version': conan_version
})
if self.__user_home != '':
self += label(metadata={
'org.opengeosys.pm.conan.user_home': self.__user_home
})
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
o = openblas(...)
Stage0 += o
Stage1 += o.runtime()
```
"""
instructions = []
instructions.append(comment('OpenBLAS'))
instructions.append(copy(_from=_from, src=self.__prefix,
dest=self.__prefix))
if self.ldconfig:
instructions.append(shell(
commands=[self.ldcache_step(
directory=posixpath.join(self.__prefix, 'lib'))]))
instructions.append(environment(variables=self.environment_step()))
return '\n'.join(str(x) for x in instructions)
def __str__(self):
"""String representation of the building block"""
instructions = []
comments = ['NetCDF version {}'.format(self.__version)]
if self.__cxx:
comments.append('NetCDF C++ version {}'.format(self.__version_cxx))
if self.__fortran:
comments.append('NetCDF Fortran version {}'.format(
self.__version_fortran))
instructions.append(comment(', '.join(comments)))
if self.__ospackages:
instructions.append(packages(ospackages=self.__ospackages))
instructions.append(shell(commands=self.__commands))
instructions.append(
environment(variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
m = mvapich2_gdr(...)
Stage0 += m
Stage1 += m.runtime()
```
"""
instructions = []
instructions.append(comment('MVAPICH2-GDR'))
instructions.append(packages(ospackages=self.__runtime_ospackages))
instructions.append(copy(src=self.__install_path,
dest=self.__install_path, _from=_from))
# No need to workaround compiler wrapper issue for the runtime.
# Copy the dictionary so not to modify the original.
vars = dict(self.__environment_variables)
del vars['PROFILE_POSTLIB']
instructions.append(environment(variables=vars))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Install the runtime from a full build in a previous stage"""
instructions = []
instructions.append(comment('PGI compiler'))
if self.__ospackages:
instructions.append(packages(ospackages=self.__ospackages))
instructions.append(
copy(_from=_from,
src=os.path.join(self.__basepath, self.__version, 'REDIST',
'*.so'),
dest=os.path.join(self.__basepath, self.__version, 'lib',
'')))
instructions.append(
shell(commands=[
'ln -s {0} {1}'.format(
os.path.join(self.__basepath, self.__version, 'lib',
'libpgnuma.so'),
os.path.join(self.__basepath, self.__version, 'lib',
'libnuma.so'))
]))
instructions.append(
environment(variables=self.__environment(runtime=True)))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Example
```python
c = charm(...)
Stage0 += c
Stage1 += c.runtime()
```
"""
self.rt += comment('Charm++')
self.rt += copy(_from=_from,
src=self.__installdir,
dest=self.__installdir)
if self.ldconfig:
self.rt += shell(commands=[
self.ldcache_step(
directory=posixpath.join(self.__prefix, 'lib_so'))
])
self.rt += environment(variables=self.environment_step())
return str(self.rt)
def __str__(self):
"""String representation of the building block"""
instructions = []
instructions.append(comment('MKL version {}'.format(self.version)))
if self.__ospackages:
instructions.append(packages(ospackages=self.__ospackages))
if not self.__eula:
raise RuntimeError('Intel EULA was not accepted. To accept, see the documentation for this building block')
instructions.append(packages(
apt_keys=['https://apt.repos.intel.com/intel-gpg-keys/GPG-PUB-KEY-INTEL-SW-PRODUCTS-2019.PUB'],
apt_repositories=['deb https://apt.repos.intel.com/mkl all main'],
ospackages=['intel-mkl-64bit-{}'.format(self.version)],
yum_keys=['https://yum.repos.intel.com/intel-gpg-keys/GPG-PUB-KEY-INTEL-SW-PRODUCTS-2019.PUB'],
yum_repositories=['https://yum.repos.intel.com/mkl/setup/intel-mkl.repo']))
# Set the environment
if self.__mklvars:
# Source the mklvars environment script when starting the
# container, but the variables not be available for any
# subsequent build steps.
instructions.append(shell(commands=['echo "source /opt/intel/mkl/bin/mklvars.sh intel64" >> {}'.format(self.__bashrc)]))
else:
# Set the environment so that it will be available to
# subsequent build steps and when starting the container,
# but this may miss some things relative to the mklvars
# environment script.
instructions.append(environment(variables={
'CPATH': '/opt/intel/mkl/include:$CPATH',
'LD_LIBRARY_PATH': '/opt/intel/mkl/lib/intel64:/opt/intel/lib/intel64:$LD_LIBRARY_PATH',
'LIBRARY_PATH': '/opt/intel/mkl/lib/intel64:/opt/intel/lib/intel64:$LIBRARY_PATH',
'MKLROOT': '/opt/intel/mkl'}))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Example
```python
c = charm(...)
Stage0 += c
Stage1 += c.runtime()
```
"""
instructions = []
instructions.append(comment('Charm++'))
instructions.append(copy(_from=_from, src=self.__installdir,
dest=self.__installdir))
if self.ldconfig:
instructions.append(shell(
commands=[self.ldcache_step(
directory=posixpath.join(self.__prefix, 'lib_so'))]))
if self.__environment_variables:
instructions.append(environment(
variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
m = mpich(...)
Stage0 += m
Stage1 += m.runtime()
```
"""
instructions = []
instructions.append(comment('MPICH'))
instructions.append(packages(ospackages=self.__runtime_ospackages))
instructions.append(copy(_from=_from, src=self.prefix,
dest=self.prefix))
if self.ldconfig:
instructions.append(shell(
commands=[self.ldcache_step(
directory=os.path.join(self.prefix, 'lib'))]))
if self.__environment_variables:
instructions.append(environment(
variables=self.__environment_variables))
return '\n'.join(str(x) for x in instructions)
def runtime(self, _from='0'):
"""Generate the set of instructions to install the runtime specific
components from a build in a previous stage.
# Examples
```python
g = generic_autotools(...)
Stage0 += g
Stage1 += g.runtime()
```
"""
if self.prefix:
instructions = []
if self.__comment:
if self.url:
instructions.append(comment(self.url, reformat=False))
elif self.repository:
instructions.append(
comment(self.repository, reformat=False))
instructions.append(
copy(_from=_from, src=self.prefix, dest=self.prefix))
if self.ldconfig:
instructions.append(
shell(commands=[
self.ldcache_step(directory=posixpath.join(
self.prefix, self.__libdir))
]))
if self.runtime_environment_variables:
instructions.append(
environment(variables=self.environment_step(runtime=True)))
if self.annotate:
instructions.append(label(metadata=self.annotate_step()))
return '\n'.join(str(x) for x in instructions)
else: # pragma: no cover
return
def build(container_format='singularity', os='ubuntu:18.04'):
image = os
config.set_container_format(container_format)
stage0 = Stage(name='stage0')
stage0 += baseimage(image=image, _bootstrap='docker')
stage0 += environment(variables={
'LC_ALL': 'en_AU.UTF-8',
'LANGUAGE': 'en_AU.UTF-8',
})
stage0 += label(metadata={
'maintainer': 'Luhan Cheng',
'email': '*****@*****.**'
})
stage0 += shell(commands=[
'rm /usr/bin/sh', 'ln -s /usr/bin/bash /usr/bin/sh', '/usr/bin/bash'
])
stage0 += packages(apt=[
'wget', 'git', 'software-properties-common', 'build-essential',
'locales'
])
stage0 += shell(commands=['locale-gen en_AU.UTF-8'])
stage0 += shell(commands=[
'cd /etc/apt/sources.list.d/',
'wget http://downloads.perfsonar.net/debian/perfsonar-release.list',
'wget -qO - http://downloads.perfsonar.net/debian/perfsonar-official.gpg.key | apt-key add -',
'add-apt-repository -y universe', 'apt-get update'
])
stage0 += packages(apt=[
'perfsonar-tools', 'perfsonar-testpoint', 'perfsonar-core',
'perfsonar-centralmanagement', 'perfsonar-toolkit'
])
stage0 += shell(
commands=['/usr/lib/perfsonar/scripts/install-optional-packages.py'])
return stage0
