Reorder inputsplitter transformers so that prompts pasted into the input are removed before other transforms are applied.

IPython/core/inputsplitter.py

@@ -665,7 +665,7 b' def _make_help_call(target, esc, lspace):'
 _initial_space_re = re.compile(r'\s*')
 _help_end_re = re.compile(r"""(%?
                               [a-zA-Z_*][a-zA-Z0-9_*]*       # Variable name
-                              (.[a-zA-Z_*][a-zA-Z0-9_*]*)*   # .etc.etc
+                              (\.[a-zA-Z_*][a-zA-Z0-9_*]*)*   # .etc.etc
                               )
                               (\?\??)$                       # ? or ??""",
                               re.VERBOSE)
@@ -812,9 +812,9 b' class IPythonInputSplitter(InputSplitter):'
 
         lines_list = lines.splitlines()
 
-        transforms = [transform_escaped, transform_help_end,
-                      transform_assign_system, transform_assign_magic,
-                      transform_ipy_prompt, transform_classic_prompt]
+        transforms = [transform_ipy_prompt, transform_classic_prompt,
+                      transform_escaped, transform_help_end,
+                      transform_assign_system, transform_assign_magic]
 
         # Transform logic
         #

IPython/core/tests/test_inputsplitter.py

@@ -481,6 +481,14 b' syntax = \\'
          ('/f a b', 'f(a, b)'),
          ],
 
+       # Check that we transform prompts before other transforms
+       mixed =
+       [ ('In [1]: %lsmagic', 'get_ipython().magic(u"lsmagic")'),
+         ('>>> %lsmagic', 'get_ipython().magic(u"lsmagic")'),
+         ('In [2]: !ls', 'get_ipython().system(u"ls")'),
+         ('In [3]: abs?', 'get_ipython().magic(u"pinfo abs")'),
+         ('In [4]: b = %who', 'b = get_ipython().magic(u"who")'),
+         ],
        )
 
 # multiline syntax examples.  Each of these should be a list of lists, with