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test_tools.py
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# flake8: noqa
import os
from functools import partial
from textwrap import dedent
import pyflow as pf
import pytest
import wellies as wl
from wellies import tools
def test_tool_store(custom_script_file):
lib_dir = os.path.join("path", "to", "lib")
tools_dict = {
"modules": {
"python3": {"version": 3.8},
"private": {
"version": "2023.04.1.0",
"modulefiles": "/path/to/private/module",
"depends": "python3",
},
},
"packages": {
"mypackage1": {
"type": "git",
"source": "git.example.com/repo.git",
"branch": "develop",
"post_script": "some installer", # to silence warning
},
"mypackage2": {
"type": "rsync",
"source": os.path.join("dir", "to", "package"),
"post_script": f"{custom_script_file}",
},
},
"environments": {
"myenv1": {"type": "conda", "environment": "mycondaenv"},
"myenv2": {
"type": "system_venv",
"packages": ["mypackage1", "mypackage2"],
"depends": "python3",
},
},
"env_variables": {
"bin": {
"variable": "PATH",
"value": "/path/to/local/bin",
"depends": ["private"],
},
},
}
toolstore = tools.ToolStore(lib_dir, tools_dict)
ref_class = {
"python3": tools.ModuleTool,
"private": tools.PrivateModuleTool,
"mypackage1": tools.PackageTool,
"mypackage2": tools.PackageTool,
"myenv1": tools.CondaEnvTool,
"myenv2": tools.SystemEnvTool,
"bin": tools.EnvVarTool,
}
for name, data in toolstore.items():
assert isinstance(data, ref_class[name])
assert toolstore.depends("bin") == ["private", "python3"]
assert toolstore.depends("myenv2") == ["python3"]
class BaseToolScriptsTest:
lib_dir = "/path/to/lib"
def _get_tool_parser(self):
opts = {
"environments": partial(
wl.tools.parse_environment, lib_dir=self.lib_dir
),
"packages": partial(wl.tools.parse_package, lib_dir=self.lib_dir),
"modules": wl.tools.parse_module,
}
return opts[self.section]
def _run(self, test_target, expected, tools_config):
name = test_target
options = tools_config[self.section][test_target]
tool = self._get_tool_parser()(name=name, options=options)
for name in expected.keys():
entry_script = tool.scripts[name]
if not entry_script:
assert not expected[name]
continue
elif isinstance(entry_script, pf.Script):
entry_script = entry_script.generate_stub()
elif isinstance(entry_script, list):
entry_script = pf.Script.generate_list_scripts(entry_script)
print(entry_script)
for entry in expected[name]:
if entry:
assert entry in entry_script
class TestEnvToolsScripts(BaseToolScriptsTest):
section = "environments"
def test_folder_env(self, tools_config):
test_target = "bin"
expected = {
"load": [
f"export PATH={self.lib_dir}/{test_target}" + ":${PATH:-}"
],
"unload": [
f"echo 'removing {self.lib_dir}/{test_target} from $PATH'",
"export PATH=${PATH/"
+ f"{self.lib_dir}/{test_target}"
+ ":/}",
"echo '$PATH after removing' && echo $PATH",
],
"setup": [
f"rm -rf {self.lib_dir}/{test_target}",
f"mkdir -p {self.lib_dir}/{test_target}",
],
}
self._run(test_target, expected, tools_config)
def test_system_venv(self, tools_config):
test_target = "myenv1"
extra_pkgs = tools_config["environments"][test_target][
"extra_packages"
]
extra_pkgs = " ".join(extra_pkgs)
expected = {
"load": [f"source {self.lib_dir}/{test_target}/bin/activate"],
"unload": ["deactivate"],
"setup": [
f"rm -rf {self.lib_dir}/{test_target}",
f"python3 -m venv {self.lib_dir}/{test_target} --system-site-packages",
f"pip install {extra_pkgs}",
],
}
self._run(test_target, expected, tools_config)
@pytest.mark.xfail(reason="pure venv not implemented")
def test_rsync_venv(self, tools_config):
test_target = "venv"
src_dst = tools_config["environments"][test_target]["env_file"][
"source"
]
env_file_name = tools_config["environments"][test_target]["env_file"][
"files"
]
opts = tools_config["environments"][test_target]["env_file"][
"rsync_options"
]
expected = {
"load": [f"source {self.lib_dir}/{test_target}/bin/activate"],
"unload": ["deactivate"],
"setup": [
f"mkdir -p {self.lib_dir}/build",
f"dest_dir={self.lib_dir}/build/{test_target}",
"rm -rf $dest_dir",
"mkdir -p $dest_dir",
f"rsync {opts} {src_dst}/{env_file_name} $dest_dir/",
f"rm -rf {self.lib_dir}/{test_target}",
f"python3 -m venv {self.lib_dir}/{test_target}",
f"pip install -r {env_file_name}",
],
}
self._run(test_target, expected, tools_config)
def test_copy_yaml(self, tools_config):
test_target = "conda_copy"
src_dst = tools_config["environments"][test_target]["env_file"][
"source"
]
env_file_name = tools_config["environments"][test_target]["env_file"][
"files"
]
expected = {
"load": [
"set +ux",
f"conda activate {self.lib_dir}/{test_target}",
"set -ux",
],
"unload": ["conda deactivate"],
"setup": [
f"mkdir -p {self.lib_dir}/build",
f"dest_dir={self.lib_dir}/build/{test_target}",
"rm -rf $dest_dir",
"mkdir -p $dest_dir",
"cd $dest_dir",
f"scp {src_dst}/{env_file_name} $dest_dir/",
f"rm -rf {self.lib_dir}/{test_target}",
f"conda env create --file {self.lib_dir}/build/{test_target}/{env_file_name} -p {self.lib_dir}/{test_target}",
],
}
self._run(test_target, expected, tools_config)
def test_conda_exist(self, tools_config):
test_target = "conda_exist"
conda_prefix = tools_config["environments"][test_target]["environment"]
expected = {
"load": ["set +ux", f"conda activate {conda_prefix}", "set -ux"],
"unload": ["conda deactivate"],
"setup": [],
}
self._run(test_target, expected, tools_config)
def test_conda_git_yaml(self, tools_config):
test_target = "conda_remote_file"
gitsrc = tools_config["environments"][test_target]["env_file"][
"source"
]
env_file_name = tools_config["environments"][test_target]["env_file"][
"files"
]
print(env_file_name)
expected = {
"load": [
"set +ux",
f"conda activate {self.lib_dir}/{test_target}",
"set -ux",
],
"unload": ["conda deactivate"],
"setup": [
f"mkdir -p {self.lib_dir}/build",
f"dest_dir={self.lib_dir}/build/git/{test_target}",
"rm -rf $dest_dir",
f"giturl={gitsrc}",
"gitbranch=master",
"git clone $giturl --branch $gitbranch --single-branch --depth 1 $dest_dir",
"cd $dest_dir",
f"dest_dir={self.lib_dir}/build/{test_target}",
f"rsync -avzpL {self.lib_dir}/build/git/{test_target}/{env_file_name} $dest_dir/",
"cd $dest_dir",
f"rm -rf {self.lib_dir}/{test_target}",
f"conda env create --file {self.lib_dir}/build/{test_target}/{env_file_name} -p {self.lib_dir}/{test_target}",
],
}
self._run(test_target, expected, tools_config)
def test_conda_pkgs(self, tools_config):
test_target = "conda_pkgs"
extra_pkgs = tools_config["environments"][test_target][
"extra_packages"
]
extra_pkgs = " ".join(extra_pkgs)
conda_cmd = tools_config["environments"][test_target]["conda_cmd"]
expected = {
"load": [
"set +ux",
f"conda activate {self.lib_dir}/{test_target}",
"set -ux",
],
"unload": ["conda deactivate"],
"setup": [
f"rm -rf {self.lib_dir}/{test_target}",
f"{conda_cmd} create -p {self.lib_dir}/{test_target} {extra_pkgs}",
],
}
self._run(test_target, expected, tools_config)
class TestPackageToolScripts(BaseToolScriptsTest):
section = "packages"
def test_custom_pkg(self, tools_config, custom_script):
test_target = "custompkg"
expected = {
"load": None,
"unload": None,
"setup": [
f"mkdir -p {self.lib_dir}" + "/build/${ENV_NAME:-}",
"# Post-script",
f"{custom_script}",
"ecflow_client --label=version $(if [[ -f version.txt ]]; then cat version.txt; else echo NA; fi)",
],
}
self._run(test_target, expected, tools_config)
def test_literal_str_cmd(self, tools_config):
test_target = "mypkg"
pkg_src = tools_config["packages"][test_target]["source"]
pre_script = tools_config["packages"][test_target]["pre_script"]
post_script = tools_config["packages"][test_target]["post_script"]
expected = {
"load": None,
"unload": None,
"setup": [
f"{pre_script}",
f"mkdir -p {self.lib_dir}" + "/build/${ENV_NAME:-}",
f"dest_dir={self.lib_dir}"
+ "/build/${ENV_NAME:-}"
+ f"/{test_target}",
"rm -rf $dest_dir",
"mkdir -p $dest_dir",
f"scp {pkg_src} $dest_dir/",
"cd $dest_dir",
"# Post-script",
f"{post_script}",
"ecflow_client --label=version $(if [[ -f version.txt ]]; then cat version.txt; else echo NA; fi)",
],
}
self._run(test_target, expected, tools_config)
def test_rsync_and_literal_installer(self, tools_config):
test_target = "myremotepkg"
pkg_src = tools_config["packages"][test_target]["source"]
cmd = tools_config["packages"][test_target]["post_script"]
expected = {
"load": None,
"unload": None,
"setup": [
f"mkdir -p {self.lib_dir}" + "/build/${ENV_NAME:-}",
f"dest_dir={self.lib_dir}"
+ "/build/${ENV_NAME:-}"
+ f"/{test_target}",
f"rsync -avzpL {pkg_src} $dest_dir/",
"# Post-script",
f"{cmd}",
"ecflow_client --label=version $(if [[ -f version.txt ]]; then cat version.txt; else echo NA; fi)",
],
}
self._run(test_target, expected, tools_config)
def test_link_and_list_commands(self, tools_config):
test_target = "dev-install"
pkg_src = tools_config["packages"][test_target]["source"]
run_cmd_list = tools_config["packages"][test_target]["post_script"]
expected = {
"load": None,
"unload": None,
"setup": [
f"mkdir -p {self.lib_dir}" + "/build/${ENV_NAME:-}",
f"dest_dir={self.lib_dir}"
+ "/build/${ENV_NAME:-}"
+ f"/{test_target}",
"rm -rf $dest_dir",
f"ln -sfn {pkg_src} $dest_dir",
"if [[ -L $dest_dir && -d $(readlink $dest_dir) ]]; then",
" echo Link and directory exist",
"else",
" echo Link or directory does not exist",
" exit 1",
"fi",
"cd $dest_dir",
"# Post-script",
*run_cmd_list,
"ecflow_client --label=version $(if [[ -f version.txt ]]; then cat version.txt; else echo NA; fi)",
],
}
self._run(test_target, expected, tools_config)
def test_git_and_file_installer(self, tools_config, custom_script):
test_target = "earthkit"
pkg_src = tools_config["packages"][test_target]["source"]
branch = tools_config["packages"][test_target]["branch"]
expected = {
"load": None,
"unload": None,
"setup": [
f"mkdir -p {self.lib_dir}" + "/build/${ENV_NAME:-}",
f"dest_dir={self.lib_dir}"
+ "/build/${ENV_NAME:-}"
+ f"/{test_target}",
"rm -rf $dest_dir",
f"giturl={pkg_src}",
f"gitbranch={branch}",
"git clone $giturl --branch $gitbranch --single-branch --depth 1 $dest_dir",
"cd $dest_dir",
"# Post-script",
f"{custom_script}",
"ecflow_client --label=version $(if [[ -f version.txt ]]; then cat version.txt; else echo NA; fi)",
],
}
self._run(test_target, expected, tools_config)