import re
import logging
import uuid
+import os
import arvados.commands.run
import arvados.collection
return super(ArvPathMapper, self).reversemap(target)
class InitialWorkDirPathMapper(PathMapper):
+
+ def visit(self, obj, stagedir, basedir, copy=False):
+ # type: (Dict[unicode, Any], unicode, unicode, bool) -> None
+ if obj["class"] == "Directory":
+ self._pathmap[obj["location"]] = MapperEnt(obj["location"], stagedir, "Directory")
+ self.visitlisting(obj.get("listing", []), stagedir, basedir)
+ elif obj["class"] == "File":
+ loc = obj["location"]
+ if loc in self._pathmap:
+ return
+ tgt = os.path.join(stagedir, obj["basename"])
+ if "contents" in obj and obj["location"].startswith("_:"):
+ self._pathmap[loc] = MapperEnt(obj["contents"], tgt, "CreateFile")
+ else:
+ if copy:
+ self._pathmap[loc] = MapperEnt(obj["path"], tgt, "WritableFile")
+ else:
+ self._pathmap[loc] = MapperEnt(obj["path"], tgt, "File")
+ self.visitlisting(obj.get("secondaryFiles", []), stagedir, basedir)
+
def setup(self, referenced_files, basedir):
# type: (List[Any], unicode) -> None