import errno
import urlparse
import re
+import logging
import ruamel.yaml as yaml
import arvados.util
import arvados.collection
import arvados.arvfile
+import arvados.errors
from schema_salad.ref_resolver import DefaultFetcher
+logger = logging.getLogger('arvados.cwl-runner')
+
class CollectionFsAccess(cwltool.stdfsaccess.StdFsAccess):
"""Implement the cwltool FsAccess interface for Arvados Collections."""
return super(CollectionFetcher, self).fetch_text(url)
def check_exists(self, url):
- if url.startswith("keep:"):
- return self.fsaccess.exists(url)
- if url.startswith("arvwf:"):
- if self.fetch_text(url):
- return True
+ try:
+ if url.startswith("keep:"):
+ return self.fsaccess.exists(url)
+ if url.startswith("arvwf:"):
+ if self.fetch_text(url):
+ return True
+ except arvados.errors.NotFoundError:
+ return False
+ except:
+ logger.exception("Got unexpected exception checking if file exists:")
+ return False
return super(CollectionFetcher, self).check_exists(url)
def urljoin(self, base_url, url):