SAGE-2.9.1 -- Holiday Edition

Release Manager: Robert Miller

summary:
rc3: fixed mwrank importing, and
William Stein - check types for plotting

rc2: four spaces -> tab in spkg/standard/deps, and
#1558 - Joel Mohler
  - more NTL wrapping, coefficient access and factoring
#1564 - Robert Bradshaw, William Stein
  - 3d graphics via jmol!
#1580 - Robert Miller
  - notebook shows graphics out of order

rc1: just fixed spkg/install and spkg/standard/deps from #1505

rc0:
#405 - Mike Hansen
  - set rows and cols of matrices
#649 Robert Bradshaw, Mike Hansen
  - create a special symbolic matrix data type
#857 - Michael Abshoff, Robert Miller
  - updates to COPYING.txt
#1106 - Mike Hansen
  - speed up dense matrix comparison
#1448 - Mike Hansen, ref. David Harvey
  - iterate over a matrix space
#1459 - Mike Hansen
  - make notebook ? behavior like command line behavior
#1505 - Martin Albrecht
  - make M4RI a shared library
#1533 - Robert Bradshaw
  - finish converting java3d to an spkg
#1566 - Mike Hansen
  - Symbolic substitution infinite recursion
#1586 - Robert Miller
  - preparser.py doctest failures

alpha3:
#668 - Michael Abshoff
  - numerical noise doctest in calculus.py
#670 - Michael Abshoff
  - numerical noise doctest in piecewise.py
#924 - William Stein
  - the matplotlib spkg patches break underlying functionality
#1561 - Nick Alexander
  - add ._matrix_() and .transpose() to vector/FreeModuleElement.
#1579 - Michael Abshoff
  - memleak in GSL's ComplexDoubleVector
#1582 - Robert Miller
  - 2.9.1.alph2: doctest failure in sage/graphs/graph.py with x86 Linux
#1584 - Robert Miller
  - calculus.py doctest failure on Fermat

alpha2:
#1064 - Robert Miller
  - permutation __call__ type check
#1175 - Michael Abshoff
  - circular link in sage/local/lib/python2.5
#1233 - Michael Abshoff, John Cremona
  - mwrank wrapper causes crashes and error on non-minimal curves
#1240 - Michael Abshoff
  - wrong unix rights of some files
#1424 - William Stein
  - threaded map function, as requested by Peter Doyle
#1546 - Michael Abshoff
  - Update FLINT.spkg to 1.03 release
#1556 - Yi Qiang
  - make usernames legible on bad login name to notebook
#1562 - Dan Drake
  - inverse trig
#1563 - Robert Miller
  - ./sage -r main
#1569 - William Stein
  - solve() fails if one list element is True
#1572 - Michael Abshoff
  - memleak in graph_fast.pyx
#1573 - Michael Abshoff
  - Mismatched free() / delete / delete [] in wrap.cc

alpha1:
#1139 - Mike Hansen
 - nintegral raises helpful error if precision is too high
#1318 & #1319 - Robert Miller
 - eigenspaces/charpoly of a graph
#1363 - Carl Witty
 - sqrt for complex intervals
#1380 - Martin Albrecht
 - R.<x,y>=QQ[]; x.subs(x=1/y); now works
#1421 - Paul Zimmerman, Craig Citro
 - finer control in ECM interface
#1432 - William Stein
 - plotting examples
#1540 - Michael Abshoff
 - remove linux elf binaries during lapack build
#1542 & #1543 - Craig Citro
 - R/rpy build issues fixed
#1548 - Michael Abshoff
 - numerical noise in doctests in calculus.py
#1551 - Robert Miller
 - is_subgraph
#1555 - bill.p, William Stein
 - typos in documentation