def test_singularity(self):
specs = {
'pkg_manager':
'apt',
'instructions': [
('base', 'docker://debian:stretch-slim'),
('user', 'neuro'),
('workdir', '/home/neuro'),
('miniconda', {
'version': '4.6.14',
'create_env': 'default',
'conda_install': ['python=3.6.5', 'traits'],
'pip_install': ['nipype'],
'activate': True,
}),
('miniconda', {
'use_env': 'default',
'pip_install': ['pylsl']
}),
],
}
bash_test_file = "test_miniconda.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager":
"apt",
"instructions": [
("base", "docker://debian:stretch-slim"),
("user", "neuro"),
("workdir", "/home/neuro"),
(
"miniconda",
{
"version": "4.6.14",
"create_env": "default",
"conda_install": ["python=3.6.5", "traits"],
"pip_install": ["nipype"],
"activate": True,
},
),
("miniconda", {
"use_env": "default",
"pip_install": ["pylsl"]
}),
],
}
bash_test_file = "test_miniconda.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
'pkg_manager': 'apt',
'instructions': [
('base', 'docker://ubuntu:16.04'),
('freesurfer', {'version': '6.0.0-min'}),
('user', 'neuro'),
]
}
bash_test_file = "test_freesurfer.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager": "apt",
"instructions": [
("base", "docker://ubuntu:xenial"),
("petpvc", {"version": "1.2.2"}),
("user", "neuro"),
],
}
bash_test_file = "test_petpvc.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file
)
def test_singularity(self):
specs = {
"pkg_manager": "yum",
"instructions": [
("base", "docker://centos:7"),
("mrtrix3", {"version": "3.0_RC2"}),
("user", "neuro"),
],
}
bash_test_file = "test_mrtrix.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file
)
def test_singularity(self):
specs = {
"pkg_manager":
"apt",
"instructions": [
("base", "docker://ubuntu:20.04"),
("freesurfer", {
"version": "7.1.1-min"
}),
("user", "neuro"),
],
}
bash_test_file = "test_freesurfer.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
'pkg_manager':
'yum',
'instructions': [
('base', 'docker://centos:7'),
('minc', {
'version': '1.9.15'
}),
('user', 'neuro'),
]
}
bash_test_file = "test_minc.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
'pkg_manager':
'apt',
'instructions': [
('base', 'docker://ubuntu:xenial'),
('petpvc', {
'version': '1.2.2'
}),
('user', 'neuro'),
]
}
bash_test_file = "test_petpvc.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager":
"apt",
"instructions": [
("base", "docker://debian:stretch"),
("spm12", {
"version": "r7219"
}),
("user", "neuro"),
],
}
bash_test_file = "test_spm12.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager":
"apt",
"instructions": [
("base", "docker://debian:stretch"),
("afni", {
"version": "latest",
"method": "binaries"
}),
("user", "neuro"),
],
}
bash_test_file = "test_afni.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
'pkg_manager':
'apt',
'instructions': [
('base', 'docker://debian:stretch'),
('spm12', {
'version': 'r7219'
}),
('user', 'neuro'),
],
}
bash_test_file = "test_spm12.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager":
"apt",
"instructions": [
("base", "docker://ubuntu:16.04"),
("convert3d", {
"version": "1.0.0"
}),
("user", "neuro"),
],
}
bash_test_file = "test_convert3d.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager":
"yum",
"instructions": [
("base", "docker://centos:7"),
("dcm2niix", {
"version": "master",
"method": "source"
}),
("user", "neuro"),
],
}
bash_test_file = "test_dcm2niix.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
'pkg_manager':
'yum',
'instructions': [
('base', 'docker://centos:7'),
('dcm2niix', {
'version': 'master',
'method': 'source'
}),
('user', 'neuro'),
],
}
bash_test_file = "test_dcm2niix.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
def test_singularity(self):
specs = {
"pkg_manager": "apt",
"instructions": [
("base", "docker://ubuntu:16.04"),
(
"neurodebian",
{"os_codename": "stretch", "server": "usa-nh", "full": True},
),
("install", ["dcm2niix"]),
("user", "neuro"),
],
}
bash_test_file = "test_neurodebian.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file
)
def test_singularity(self):
specs = {
'pkg_manager': 'apt',
'instructions': [
('base', 'docker://ubuntu:16.04'),
(
'neurodebian',
{
'os_codename': 'stretch',
'server': 'usa-nh',
'full': True,
}
),
('install', ['dcm2niix']),
('user', 'neuro'),
]
}
bash_test_file = "test_neurodebian.sh"
utils.test_singularity_container_from_specs(
specs=specs, bash_test_file=bash_test_file)
