diff --git a/dvc/cli.py b/dvc/cli.py
index 61953d265..cfbd99356 100644
--- a/dvc/cli.py
+++ b/dvc/cli.py
@@ -277,9 +277,4 @@ def parse_args(argv=None):
 
     args = parser.parse_args(argv)
 
-    if args.quiet and not args.verbose:
-        Logger.be_quiet()
-    elif not args.quiet and args.verbose:
-        Logger.be_verbose()
-
     return args
diff --git a/dvc/command/common/base.py b/dvc/command/common/base.py
index b0ded05c1..d04d3763a 100644
--- a/dvc/command/common/base.py
+++ b/dvc/command/common/base.py
@@ -10,6 +10,14 @@ class CmdBase(object):
     def __init__(self, args):
         self.project = Project(self._find_root())
         self.args = args
+        self._set_loglevel(args)
+
+    @staticmethod
+    def _set_loglevel(args):
+        if args.quiet and not args.verbose:
+            Logger.be_quiet()
+        elif not args.quiet and args.verbose:
+            Logger.be_verbose()
 
     def _find_root(self):
         root = os.getcwd()
diff --git a/dvc/command/run.py b/dvc/command/run.py
index 5c99296dd..b2fec20f6 100644
--- a/dvc/command/run.py
+++ b/dvc/command/run.py
@@ -42,5 +42,7 @@ class CmdRun(CmdBase):
     @staticmethod
     def _stage_file_basename(fname):
         result = os.path.basename(fname)
+        if len(result) == 0:
+            result = os.path.dirname(fname)
         result += Stage.STAGE_FILE_SUFFIX
         return result
diff --git a/dvc/output.py b/dvc/output.py
index a4be21782..e81205aa5 100644
--- a/dvc/output.py
+++ b/dvc/output.py
@@ -77,8 +77,19 @@ class Dependency(object):
 
         return self.project.state.changed(self.path, self.md5)
 
+    @staticmethod
+    def _changed_msg(changed):
+        if changed:
+            return 'changed'
+        return "didn't change"
+
     def changed(self):
-        return self._changed_md5()
+        ret = self._changed_md5()
+
+        msg = u'Dependency \'{}\' {}'.format(self.rel_path, self._changed_msg(ret))
+        self.project.logger.debug(msg)
+
+        return ret
 
     def status(self):
         if self.changed():
@@ -231,12 +242,8 @@ class Output(Dependency):
         else:
             ret = self._changed_file(self.path, self.cache)
 
-        msg = u'Data file or dir \'{}\' with cache \'{}\' '
-        if ret:
-            msg += 'changed'
-        else:
-            msg += 'didn\'t change'
-        self.project.logger.debug(msg.format(self.rel_path, self.rel_cache))
+        msg = u'Data file or dir \'{}\' with cache \'{}\' {}'
+        self.project.logger.debug(msg.format(self.rel_path, self.rel_cache, self._changed_msg(ret)))
 
         return ret