def _get_local_docker_images(self):
"""Return a list with local docker images."""
from reana_client.utils import run_command
# Check if docker is installed.
run_command("docker version", display=False, return_output=True)
docker_images = run_command(
'docker images --format "{{ .Repository }}:{{ .Tag }}"',
display=False,
return_output=True,
)
return docker_images.splitlines()
def validate_parameters(self):
"""Validate input parameters for CWL workflows."""
def _check_dangerous_operations(workflow):
"""Check for "baseCommand" and "arguments" in workflow.
If these keys are found, validate if they have dangerous operations.
"""
cmd_keys = ["baseCommand", "arguments"]
for cmd_key in cmd_keys:
if cmd_key in workflow:
commands = (
workflow[cmd_key]
if isinstance(workflow[cmd_key], list)
else [workflow[cmd_key]]
)
self._validate_dangerous_operations(
commands, step=workflow.get("id")
)
from reana_client.utils import run_command
cwl_main_spec_path = self.reana_yaml["workflow"].get("file")
if os.path.exists(cwl_main_spec_path):
run_command(
"cwltool --validate --strict {}".format(cwl_main_spec_path),
display=False,
return_output=True,
stderr_output=True,
)
else:
raise ParameterValidationError(
"Workflow path {} is not valid.".format(cwl_main_spec_path)
)
workflow = self.specification.get("$graph", self.specification)
if isinstance(workflow, dict):
_check_dangerous_operations(workflow)
elif isinstance(workflow, list):
for wf in workflow:
_check_dangerous_operations(wf)
def _get_image_uid_gids(self, image, tag):
"""Obtain environment image UID and GIDs.
:returns: A tuple with UID and GIDs.
"""
from reana_client.utils import run_command
# Check if docker is installed.
run_command("docker version", display=False, return_output=True)
# Run ``id``` command inside the container.
uid_gid_output = run_command(
'docker run -i -t --rm {} sh -c "/usr/bin/id -u && /usr/bin/id -G"'
.format(self._get_full_image_name(image, tag)),
display=False,
return_output=True,
)
ids = uid_gid_output.splitlines()
uid, gids = (
int(ids[-2]),
[int(gid) for gid in ids[-1].split()],
)
return uid, gids