def build_conda_context(**kwds):
""" Build a Galaxy CondaContext tailored to planemo use
and common command-line arguments.
"""
conda_prefix = kwds.get("conda_prefix", None)
use_planemo_shell = kwds.get("use_planemo_shell_exec", True)
ensure_channels = kwds.get("conda_ensure_channels", "")
shell_exec = shell if use_planemo_shell else None
return conda_util.CondaContext(conda_prefix=conda_prefix,
ensure_channels=ensure_channels,
shell_exec=shell_exec)
def build_conda_context(ctx, **kwds):
"""Build a galaxy-lib CondaContext tailored to planemo use.
Using planemo's common command-line/globa config options.
"""
condarc_override_default = os.path.join(ctx.workspace, "condarc")
conda_prefix = kwds.get("conda_prefix", None)
use_planemo_shell = kwds.get("use_planemo_shell_exec", True)
ensure_channels = kwds.get("conda_ensure_channels", "")
condarc_override = kwds.get("condarc", condarc_override_default)
shell_exec = shell if use_planemo_shell else None
return conda_util.CondaContext(conda_prefix=conda_prefix,
ensure_channels=ensure_channels,
condarc_override=condarc_override,
shell_exec=shell_exec)
def best_practice_search(conda_target, conda_context=None):
# Call it in offline mode after the first time.
try:
best_practice_search_first.previously_called
# TODO: Undo this...
offline = False
except AttributeError:
best_practice_search_first.previously_called = True
offline = False
if not conda_context:
conda_context = conda_util.CondaContext()
return conda_util.best_search_result(
conda_target,
conda_context=conda_context,
channels_override=BEST_PRACTICE_CHANNELS,
offline=offline)
def build_conda_context(ctx, **kwds):
"""Build a galaxy-lib CondaContext tailored to planemo use.
Using planemo's common command-line/global config options.
"""
condarc_override_default = os.path.join(ctx.workspace, "condarc")
conda_prefix = kwds.get("conda_prefix", None)
use_planemo_shell = kwds.get("use_planemo_shell_exec", True)
ensure_channels = kwds.get("conda_ensure_channels", "")
condarc_override = kwds.get("condarc", condarc_override_default)
use_local = kwds.get("conda_use_local", False)
shell_exec = shell if use_planemo_shell else None
conda_context = conda_util.CondaContext(conda_prefix=conda_prefix,
ensure_channels=ensure_channels,
condarc_override=condarc_override,
use_local=use_local,
shell_exec=shell_exec)
handle_auto_init = kwds.get("handle_auto_init", False)
if handle_auto_init and not conda_context.is_installed():
auto_init = kwds.get("conda_auto_init", True)
failed = True
if auto_init:
if conda_context.can_install_conda():
if conda_util.install_conda(conda_context):
error(MESSAGE_ERROR_FAILED_INSTALL)
else:
failed = False
else:
error(MESSAGE_ERROR_CANNOT_INSTALL)
else:
error(MESSAGE_ERROR_NOT_INSTALLING)
if failed:
raise ExitCodeException(EXIT_CODE_FAILED_DEPENDENCIES)
if handle_auto_init:
conda_context.ensure_conda_build_installed_if_needed()
return conda_context