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run-1-6-1_001

sync with trunk
svn path=/bioperl-run/branches/branch-1-6/; revision=16221

release-1-6-1

merge last commit to branch
svn path=/bioperl-run/branches/branch-1-6/; revision=15575

release-1-6

bump version
svn path=/bioperl-run/branches/branch-1-6/; revision=15567

bioperl-1-6-RC2

sync with trunk
svn path=/bioperl-run/branches/branch-1-6/; revision=15521

bioperl-1-6-RC1

forgot to change versioning, will retag
svn path=/bioperl-run/branches/branch-1-6/; revision=15460

bioperl-1-6-RC1_15468

sync with run trunk
svn path=/bioperl-run/branches/branch-1-6/; revision=15456

bioperl-run-release-1-5-2

mention wiki
svn path=/bioperl-run/trunk/; revision=13821

bioperl-run-release-1-5-1

merge HEAD changes to put EMBOSS require in BEGIN
svn path=/bioperl-run/branches/bioperl-run-branch-1-5-1/; revision=13670

bioperl-run-release-1-5-1-rc4

Changes updated for the release
svn path=/bioperl-run/trunk/; revision=13663

bioperl-run-release-1-5-0-rc1

get rid of deprecation warning
svn path=/bioperl-run/trunk/; revision=13534

bioperl-run-devel-1-3-01

updated using info from maintanence/authors.pl script
svn path=/bioperl-run/trunk/; revision=13505

bioperl-run-release-1-4-0

updated using info from maintanence/authors.pl script
svn path=/bioperl-run/trunk/; revision=13505

bioperl-run-release-1-2-2

VERSION to 1.2.2
svn path=/bioperl-run/trunk/; revision=13476

bioperl-run-release-1-2-0

Write the files properly
svn path=/bioperl-run/trunk/; revision=13451

release-1-2-0

Write the files properly
svn path=/bioperl-run/trunk/; revision=13451

bioperl-release-1-1-0

Fixed nasty bug coming from Ensembl missing the first line of repeatm…
…asker output file

svn path=/bioperl-run/trunk/; revision=13181

bioperl-release-1-0-1

skipped tests actually report why they are skipped if you put the com…
…ment as the first parameter to the skip cmd

svn path=/bioperl-run/branches/branch-1-0-0/; revision=13084

bioperl-release-1-0-0

update test count
svn path=/bioperl-run/branches/branch-1-0-0/; revision=13052

bioperl-1-0-alpha2-rc

call cleanup upon _setinput call
svn path=/bioperl-run/branches/branch-1-0-0/; revision=13029

bioperl-1-0-0

turn of clustalw debugging
svn path=/bioperl-run/trunk/; revision=13022

bioperl-1-0-alpha

got all tests to pass
svn path=/bioperl-run/trunk/; revision=13012

release-0-9-3

debug message now uses the debug method
svn path=/bioperl-run/trunk/; revision=13005

release-0-9-2

skip msg updated due to clustal 1.81 bug
svn path=/bioperl-run/trunk/; revision=12996

release-0-7-2

Fix to avoid bark in File::Spec.
svn path=/bioperl-run/branches/branch-07/; revision=12984

release-0-9-0

don't have clustalw tests fail for 0.9 release
svn path=/bioperl-run/trunk/; revision=12978

release-0-7-1

The code for setting the path to binary was in BEGIN block making it
impossible to change from a calling perl script. Moved it into new().
$ENV{TCOFFEEDIR} = '/path/to/clustalwdir/';
 now works.

svn path=/bioperl-run/branches/branch-07/; revision=12971

release-0-7-0

POD syntax fixes
svn path=/bioperl-run/branches/branch-07/; revision=12940

snapshot-at-head-of-07-branch

properly removing tempfiles
svn path=/bioperl-run/trunk/; revision=12937
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