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Commits on Jul 5, 2008
  1. Release 1.47.

    mdehoon committed Jul 5, 2008
  2. Updating for release 1.47.

    mdehoon committed Jul 5, 2008
  3. C Clustering Library 1.39. This solves a bug in the single-linkage al…

    mdehoon committed Jul 5, 2008
    …gorithm.
Commits on Jul 4, 2008
  1. TAT_mase-nuc.txt is an unused identical copy of TAT_mase_nuc.txt (whi…

    peterjc committed Jul 4, 2008
    …ch is used in test_intelligenetics.py)
Commits on Jul 3, 2008
  1. Updated Bio.AlignIO.NexusIO to cope with an empty file. Check all the…

    peterjc committed Jul 3, 2008
    … Bio.AlignIO parsers can cope with an empty file in the unit test.
  2. Moving NexusIO from SeqIO to AlignIO. See also Bug 2531 and duplicate…

    peterjc committed Jul 3, 2008
    … names in Nexus files.
  3. Added unaltered_taxlabels to keep original (possibly duplicate) taxon…

    fkauff committed Jul 3, 2008
    … labels; added default input for empty nexus instance when no input is provided
Commits on Jul 2, 2008
  1. Restoring the ambigusous nucleotides translation tests (after fixing …

    peterjc committed Jul 2, 2008
    …Bio.Data.CodonTable)
Commits on Jul 1, 2008
  1. Don't import modules that are not used.

    mdehoon committed Jul 1, 2008
  2. Don't import modules that are not used.

    mdehoon committed Jul 1, 2008
  3. Corrected issues with taxlabels, interleaved matrices and duplicate l…

    fkauff committed Jul 1, 2008
    …abels (bug 2532)
Commits on Jun 30, 2008
Commits on Jun 29, 2008
  1. Removing stub file that's been here for three releases just to help a…

    peterjc committed Jun 29, 2008
    …nyone with old code which used Bio.FormatIO
  2. Removing two old Bio.SeqIO files which have been deprecated for the l…

    peterjc committed Jun 29, 2008
    …ast three releases.
  3. Removing the test for Ambiguous Translations, since it was failing.

    mdehoon committed Jun 29, 2008
    We can add it back in after release 1.46, when we figure out why it
    is failing.
  4. Adding deepcopy patch back in. See bug #2380.

    mdehoon committed Jun 29, 2008
  5. Adding the correct extension on Cygwin.

    mdehoon committed Jun 29, 2008
  6. Getting ready for release 1.46.

    mdehoon committed Jun 29, 2008
  7. Adding news for the 1.46 release.

    mdehoon committed Jun 29, 2008
  8. Updating README for 1.46 release.

    mdehoon committed Jun 29, 2008