I just installed sage-5.0.beta8 (I think Nicolas suggested it)
and then tried to install combinat. It failed when applying patches.
I then tried to update and here is what happened.

--Mark

$ ./sage -combinat update
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Storing top applied patch
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Unapplying all the patches
  hg --config 'extensions.hgext.mq=' --config 'ui.username="sage-
combinat script"' qpop -a
popping trac_10817-generalized_associahedra-cs.patch
patch queue now empty
Pulling the new version of the patches from the patch server
  (cd .hg/patches ; hg --config 'extensions.hgext.mq=' --config
'ui.username="sage-combinat script"' pull -u 
http://combinat.sagemath.org/patches/)
pulling from http://combinat.sagemath.org/patches/
searching for changes
no changes found
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Current non version guards:
Updated non version guards:
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
Skip backward compatibility patches for sage 4.6.2
Skip backward compatibility patches for sage 4.6.2
Skip backward compatibility patches for sage 4.1.2
Skip backward compatibility patches for sage 4.3.1
Skip backward compatibility patches for sage 4.3.1
Skip backward compatibility patches for sage 4.3.2
Skip backward compatibility patches for sage 4.3.2
Skip backward compatibility patches for sage 4.3.3
Skip backward compatibility patches for sage 4.3.4
Skip backward compatibility patches for sage 4.4
Skip backward compatibility patches for sage 4.4
Skip backward compatibility patches for sage 4.4.1
Skip backward compatibility patches for sage 4.4.2
Skip backward compatibility patches for sage 4.4.3
Skip backward compatibility patches for sage 4.4.4
Skip backward compatibility patches for sage 4.5
Skip backward compatibility patches for sage 4.5.2
Skip backward compatibility patches for sage 4.5.3
Skip backward compatibility patches for sage 4.6
Skip backward compatibility patches for sage 4.6.1
Skip backward compatibility patches for sage 4.6.1
Skip backward compatibility patches for sage 4.6.2
Skip backward compatibility patches for sage 4.6.2
Skip backward compatibility patches for sage 4.7
Skip backward compatibility patches for sage 4.7
Skip backward compatibility patches for sage 4.7.1
Skip backward compatibility patches for sage 4.7.1
Skip backward compatibility patches for sage 4.7.2
Skip backward compatibility patches for sage 4.7.2
Skip backward compatibility patches for sage 4.7.2.alpha3
Skip backward compatibility patches for sage 4.7.2.alpha4
Skip backward compatibility patches for sage 4.8
Skip backward compatibility patches for sage 4.8
Skip backward compatibility patches for sage 4.8.alpha0
Skip backward compatibility patches for sage 5.0.beta0
Skip backward compatibility patches for sage 5.0.beta2
Skip backward compatibility patches for sage 5.0.beta4
Skip backward compatibility patches for sage 5.0.beta5
Skip backward compatibility patches for sage 5.0.beta6
Updating guards
  hg --config 'extensions.hgext.mq=' --config 'ui.username="sage-
combinat script"' qselect -q -n
  hg --config 'extensions.hgext.mq=' --config 'ui.username="sage-
combinat script"' qselect
no active guards
Switching to sage combinat root directory: /home/msshimo/
sage-5.0.beta8/devel/sage-combinat
  hg --config 'extensions.hgext.mq=' --config 'ui.username="sage-
combinat script"' qpush trac_10817-generalized_associahedra-cs.patch
applying trac_10817-generalized_associahedra-cs.patch
file sage/combinat/root_system/associahedron.py already exists
1 out of 1 hunks FAILED -- saving rejects to file sage/combinat/
root_system/associahedron.py.rej
patching file sage/combinat/root_system/cartan_type.py
Hunk #1 succeeded at 1024 with fuzz 2 (offset 27 lines).
patching file sage/combinat/root_system/root_lattice_realization.py
Hunk #1 succeeded at 367 with fuzz 2 (offset 17 lines).
Hunk #2 succeeded at 973 with fuzz 2 (offset 221 lines).
patch failed, unable to continue (try -v)
patch failed, rejects left in working dir
errors during apply, please fix and refresh trac_10817-
generalized_associahedra-cs.patch
Abort

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