def lint_repository_tools(ctx, realized_repository, lint_ctx, lint_args):
path = realized_repository.path
for (tool_path, tool_source) in yield_tool_sources(ctx,
path,
recursive=True):
original_path = tool_path.replace(path, realized_repository.real_path)
info("+Linting tool %s" % original_path)
if handle_tool_load_error(tool_path, tool_source):
return True
lint_tool_source_with(lint_ctx,
tool_source,
extra_modules=lint_args["extra_modules"])
def lint_repository_tools(ctx, realized_repository, lint_ctx, lint_args):
path = realized_repository.path
for (tool_path, tool_source) in yield_tool_sources(ctx, path,
recursive=True):
original_path = tool_path.replace(path, realized_repository.real_path)
info("+Linting tool %s" % original_path)
if handle_tool_load_error(tool_path, tool_source):
return True
lint_tool_source_with(
lint_ctx,
tool_source,
extra_modules=lint_args["extra_modules"]
)
def lint_repository(ctx, realized_repository, **kwds):
# TODO: this really needs to start working with realized path.
failed = False
path = realized_repository.real_path
info("Linting repository %s" % path)
lint_args = build_lint_args(ctx, **kwds)
lint_ctx = LintContext(lint_args["level"])
lint_ctx.lint(
"lint_expansion",
lint_expansion,
realized_repository,
)
lint_ctx.lint(
"lint_expected_files",
lint_expected_files,
realized_repository,
)
lint_ctx.lint(
"lint_tool_dependencies_xsd",
lint_tool_dependencies_xsd,
path,
)
lint_ctx.lint(
"lint_tool_dependencies_actions",
lint_tool_dependencies_actions,
path,
)
lint_ctx.lint(
"lint_repository_dependencies",
lint_repository_dependencies,
path,
)
lint_ctx.lint(
"lint_shed_yaml",
lint_shed_yaml,
realized_repository,
)
lint_ctx.lint(
"lint_readme",
lint_readme,
path,
)
if kwds["urls"]:
lint_ctx.lint(
"lint_urls",
lint_tool_dependencies_urls,
path,
)
if kwds["tools"]:
for (tool_path, tool_source) in yield_tool_sources(ctx, path,
recursive=True):
info("+Linting tool %s" % tool_path)
if handle_tool_load_error(tool_path, tool_source):
failed = True
continue
lint_tool_source_with(
lint_ctx,
tool_source,
extra_modules=lint_args["extra_modules"]
)
if kwds["ensure_metadata"]:
lint_ctx.lint(
"lint_shed_metadata",
lint_shed_metadata,
realized_repository,
)
if not failed:
failed = lint_ctx.failed(lint_args["fail_level"])
if failed:
error("Failed linting")
return 1 if failed else 0
def lint_repository(ctx, realized_repository, **kwds):
# TODO: this really needs to start working with realized path.
failed = False
path = realized_repository.real_path
info("Linting repository %s" % path)
lint_args = build_lint_args(ctx, **kwds)
lint_ctx = LintContext(lint_args["level"])
lint_ctx.lint(
"lint_expansion",
lint_expansion,
realized_repository,
)
lint_ctx.lint(
"lint_expected_files",
lint_expected_files,
realized_repository,
)
lint_ctx.lint(
"lint_tool_dependencies_xsd",
lint_tool_dependencies_xsd,
path,
)
lint_ctx.lint(
"lint_tool_dependencies_actions",
lint_tool_dependencies_actions,
path,
)
lint_ctx.lint(
"lint_repository_dependencies",
lint_repository_dependencies,
path,
)
lint_ctx.lint(
"lint_shed_yaml",
lint_shed_yaml,
realized_repository,
)
lint_ctx.lint(
"lint_readme",
lint_readme,
path,
)
if kwds["tools"]:
for (tool_path, tool_xml) in yield_tool_xmls(ctx, path,
recursive=True):
info("+Linting tool %s" % tool_path)
if handle_tool_load_error(tool_path, tool_xml):
failed = True
continue
lint_xml_with(lint_ctx,
tool_xml,
extra_modules=lint_args["extra_modules"])
if kwds["ensure_metadata"]:
lint_ctx.lint(
"lint_shed_metadata",
lint_shed_metadata,
realized_repository,
)
if not failed:
failed = lint_ctx.failed(lint_args["fail_level"])
if failed:
error("Failed linting")
return 1 if failed else 0
def lint_repository(ctx, realized_repository, **kwds):
"""Lint a realized shed repository.
See :module:`planemo.shed` for details on constructing a realized
repository data structure.
"""
# TODO: this really needs to start working with realized path.
failed = False
path = realized_repository.real_path
info("Linting repository %s" % path)
lint_args, lint_ctx = setup_lint(ctx, **kwds)
lint_ctx.lint(
"lint_expansion",
lint_expansion,
realized_repository,
)
lint_ctx.lint(
"lint_expected_files",
lint_expected_files,
realized_repository,
)
lint_ctx.lint(
"lint_tool_dependencies_xsd",
lint_tool_dependencies_xsd,
path,
)
lint_ctx.lint(
"lint_tool_dependencies_sha256sum",
lint_tool_dependencies_sha256sum,
path,
)
lint_ctx.lint(
"lint_tool_dependencies_actions",
lint_tool_dependencies_actions,
path,
)
lint_ctx.lint(
"lint_repository_dependencies",
lint_repository_dependencies,
path,
)
lint_ctx.lint(
"lint_shed_yaml",
lint_shed_yaml,
realized_repository,
)
lint_ctx.lint(
"lint_readme",
lint_readme,
path,
)
if kwds["urls"]:
lint_ctx.lint(
"lint_urls",
lint_tool_dependencies_urls,
path,
)
if kwds["tools"]:
for (tool_path, tool_source) in yield_tool_sources(ctx, path,
recursive=True):
info("+Linting tool %s" % tool_path)
if handle_tool_load_error(tool_path, tool_source):
failed = True
continue
lint_tool_source_with(
lint_ctx,
tool_source,
extra_modules=lint_args["extra_modules"]
)
if kwds["ensure_metadata"]:
lint_ctx.lint(
"lint_shed_metadata",
lint_shed_metadata,
realized_repository,
)
return handle_lint_complete(lint_ctx, lint_args, failed=failed)
def lint_repository(ctx, realized_repository, **kwds):
"""Lint a realized shed repository.
See :module:`planemo.shed` for details on constructing a realized
repository data structure.
"""
# TODO: this really needs to start working with realized path.
failed = False
path = realized_repository.real_path
info("Linting repository %s" % path)
lint_args, lint_ctx = setup_lint(ctx, **kwds)
lint_ctx.lint(
"lint_expansion",
lint_expansion,
realized_repository,
)
lint_ctx.lint(
"lint_expected_files",
lint_expected_files,
realized_repository,
)
lint_ctx.lint(
"lint_tool_dependencies_xsd",
lint_tool_dependencies_xsd,
path,
)
lint_ctx.lint(
"lint_tool_dependencies_sha256sum",
lint_tool_dependencies_sha256sum,
path,
)
lint_ctx.lint(
"lint_tool_dependencies_actions",
lint_tool_dependencies_actions,
path,
)
lint_ctx.lint(
"lint_repository_dependencies",
lint_repository_dependencies,
path,
)
lint_ctx.lint(
"lint_shed_yaml",
lint_shed_yaml,
realized_repository,
)
lint_ctx.lint(
"lint_readme",
lint_readme,
path,
)
if kwds["urls"]:
lint_ctx.lint(
"lint_urls",
lint_tool_dependencies_urls,
path,
)
if kwds["tools"]:
for (tool_path, tool_source) in yield_tool_sources(ctx,
path,
recursive=True):
info("+Linting tool %s" % tool_path)
if handle_tool_load_error(tool_path, tool_source):
failed = True
continue
lint_tool_source_with(lint_ctx,
tool_source,
extra_modules=lint_args["extra_modules"])
if kwds["ensure_metadata"]:
lint_ctx.lint(
"lint_shed_metadata",
lint_shed_metadata,
realized_repository,
)
return handle_lint_complete(lint_ctx, lint_args, failed=failed)