def test_build_image_miniconda_latest_shellscript_centos7(self):
"""Install latest version of Miniconda via ContinuumIO's installer
script on CentOS 7.
"""
specs = {'pkg_manager': 'yum',
'check_urls': True,
'instructions': [
('base', 'centos:7'),
('user', 'neuro'),
('miniconda', {
'env_name': 'default',
'conda_install': ['python=3.5.1', 'traits'],
'pip_install': ['https://github.com/nipy/nipype/archive/master.tar.gz'],
}),
('miniconda', {
'env_name': 'default',
'pip_install': ['pylsl'],
})
]}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING['miniconda_centos7']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_miniconda.sh"
DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_petpvc_120b_binaries_xenial(self):
"""Install PETPVC binaries on Ubuntu Xenial."""
specs = {
'pkg_manager':
'apt',
'check_urls':
True,
'instructions': [
('base', 'ubuntu:xenial'),
('petpvc', {
'version': '1.2.0-b',
'use_binaries': True
}),
('user', 'neuro'),
]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING['petpvc_xenial']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_petpvc.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_dcm2niix_master_source_centos7(self):
"""Install dcm2niix from source on CentOS 7."""
specs = {
'pkg_manager':
'yum',
'check_urls':
True,
'instructions': [
('base', 'centos:7'),
('dcm2niix', {
'version': 'master'
}),
('user', 'neuro'),
]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING[
'dcm2niix-master_centos7']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_dcm2niix.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_fsl_5010_binaries_centos7(self):
"""Install FSL binaries on CentOS 7."""
specs = {
'pkg_manager':
'yum',
'check_urls':
True,
'instructions': [('base', 'centos:7'),
('fsl', {
'version': '5.0.10',
'use_binaries': True,
'eddy_5011': True
})]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING[
'fsl-5.0.10_centos7']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_fsl.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_mrtrix3_binaries_centos7(self):
"""Install MRtrix3 binaries on CentOS 7."""
specs = {
'pkg_manager':
'yum',
'check_urls':
True,
'instructions': [
('base', 'centos:7'),
('mrtrix3', {
'use_binaries': True
}),
('user', 'neuro'),
]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING[
'mrtrix3_centos7']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_mrtrix.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_convert3d_100_binaries_zesty(self):
"""Install Convert3D binaries on Ubuntu Zesty."""
specs = {
'pkg_manager':
'apt',
'check_urls':
True,
'instructions': [
('base', 'ubuntu:zesty'),
('c3d', {
'version': '1.0.0'
}),
('user', 'neuro'),
]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING[
'convert3d_zesty']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_convert3d.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_afni_latest_binaries_stretch(self):
"""Install latest AFNI binaries on Debian stretch."""
specs = {
'pkg_manager':
'apt',
'check_urls':
False,
'instructions': [
('base', 'debian:stretch'),
('afni', {
'version': 'latest',
'use_binaries': True
}),
('user', 'neuro'),
]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING[
'afni-latest_stretch']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_afni.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_freesurfer_600_min_binaries_xenial(self):
"""Install minimized FreeSurfer binaries on Ubuntu Xenial."""
specs = {
'pkg_manager':
'apt',
'check_urls':
True,
'instructions': [
('base', 'ubuntu:xenial'),
('freesurfer', {
'version': '6.0.0',
'use_binaries': True,
'min': True
}),
('user', 'neuro'),
]
}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING[
'freesurfer-min_zesty']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_freesurfer.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_spm_12_standalone_zesty(self):
"""Install standalone SPM12 and MATLAB MCR R2017a."""
specs = {'pkg_manager': 'apt',
'check_urls': True,
'instructions': [
('base', 'ubuntu:zesty'),
('spm', {'version': '12', 'matlab_version': 'R2017a'}),
('user', 'neuro'),
]}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING['spm-12_zesty']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_spm.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)
def test_build_image_neurodebian_dcm2niix_xenial(self):
"""Install NeuroDebian on Ubuntu 16.04."""
specs = {'pkg_manager': 'apt',
'check_urls': False,
'instructions': [
('base', 'ubuntu:16.04'),
('neurodebian', {'os_codename': 'stretch',
'download_server': 'usa-nh',
'full': True,
'pkgs': ['dcm2niix']}),
('user', 'neuro'),
]}
df = Dockerfile(specs).cmd
dbx_path, image_name = utils.DROPBOX_DOCKERHUB_MAPPING['neurodebian_stretch']
image, push = utils.get_image_from_memory(df, dbx_path, image_name)
cmd = "bash /testscripts/test_neurodebian.sh"
assert DockerContainer(image).run(cmd, volumes=utils.volumes)
if push:
utils.push_image(image_name)