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Sync with trunk. This will appear in final release.
2009-01-06
c
j
fie
l
ds
Sync with tr
u
nk
.
This will ap
p
ear i
n
fina
l
r
e
lease
.
commit
|
commitdiff
|
tree
2009-01-06
cjfields
Resolve conflict (can't directly merge s
i
nce trunk
.
.
.
commit
|
commitdiff
|
tree
2009-01-06
cj
f
ields
Sync that las
t
b
it wit
h
trun
k
.
I'll ha
v
e t
o
merg
e
.
.
.
commit
|
commitdiff
|
tree
2009-01-06
c
j
fie
l
ds
Sync wit
h
t
r
u
nk
commit
|
commitdiff
|
tree
2009-01-05
cjfields
Bump
RC to
2; wi
l
l tag, bag, a
n
d ship tomorrow after
.
.
.
commit
|
commitdiff
|
tree
2009-01-05
c
jfields
S
ync wi
t
h tr
u
n
k
commit
|
commitdiff
|
tree
2009-01-04
cj
f
ields
s
ync with trunk
commit
|
commitdiff
|
tree
2009-01-02
cjfields
s
y
nc from trunk
commit
|
commitdiff
|
tree
2009-01-02
cjfield
s
sync
l
ast comm
i
t
commit
|
commitdiff
|
tree
2009-01-02
cjf
i
e
lds
s
ync w
i
th
H
EAD
commit
|
commitdiff
|
tree
2009-01-02
cjfields
Remove t/Graphics
commit
|
commitdiff
|
tree
2009-01-02
c
jfie
l
ds
Remove Bio::Graphics examp
l
e
s an
d
s
c
rip
t
s
commit
|
commitdiff
|
tree
2008-12-26
c
jfi
e
l
d
s
em
p
t
y
dir
e
ctory
commit
|
commitdiff
|
tree
2008-12-26
cjfields
Empty direc
t
o
r
y
commit
|
commitdiff
|
tree
2008-12-26
c
jfiel
d
s
emp
t
y
directory
commit
|
commitdiff
|
tree
2008-12-26
c
j
fields
sync with trunk
commit
|
commitdiff
|
tree
2008-12-24
cjfield
s
small cl
a
r
i
fication
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Add list of
bugs
s
lated for t
h
e 1
.
6
.
x series
commit
|
commitdiff
|
tree
2008-12-24
c
jfields
Updates for RC1
commit
|
commitdiff
|
tree
2008-12-24
cjfiel
d
s
remove
M
icr
o
ar
r
ay deps
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Small fix
for te
s
ts JIC there
i
s a netw
o
rk error
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Sync branc
h
with trunk
commit
|
commitdiff
|
tree
2008-12-24
cj
f
ields
Remove Bio::Microarray
f
r
o
m branch (still
i
n
d
evelop
m
ent
.
.
.
commit
|
commitdiff
|
tree
2008-12-24
cjfie
l
ds
Remove (me
r
ge
d
i
d
n
'
t remove this for s
o
m
e reason
)
commit
|
commitdiff
|
tree
2008-12-24
cjfields
R
em
o
ve
(
merge didn't remove this for
some reason)
commit
|
commitdiff
|
tree
2008-12-22
cjfields
sync trunk with b
r
anc
h
commit
|
commitdiff
|
tree
2008-12-20
cjfields
5
.
6
.
1 i
s
min perl vers
i
on
required for all core modules no
w
commit
|
commitdiff
|
tree
2008-12-19
cjfield
s
upd
a
te NAMES
commit
|
commitdiff
|
tree
2008-12-19
c
jfields
s
mall t
y
po
commit
|
commitdiff
|
tree
2008-12-18
cjfie
l
ds
typo
commit
|
commitdiff
|
tree
2008-12-18
cjfield
s
[bug
2
7
1
4]
commit
|
commitdiff
|
tree
2008-12-17
c
j
fields
fix tes
t
number
commit
|
commitdiff
|
tree
2008-12-17
cjfields
update Test::Warn (fixes Q
u
al
.
t te
s
t prob
l
ems with
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjfiel
d
s
missed one
commit
|
commitdiff
|
tree
2008-12-16
cjfie
l
ds
EUt
i
lit
i
es remote te
s
ts back o
n
line (simp
l
e tests only)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
EUtilities remo
t
e tests bac
k
o
nline (simple tests only)
commit
|
commitdiff
|
tree
2008-12-16
cjfi
e
lds
Yo
u
must act
u
ally test data if
you want this module
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
c
jfields
Don't us
e
print! Changin
g
to $self->
d
ebug or commenting out
commit
|
commitdiff
|
tree
2008-12-16
cjfiel
d
s
B
i
o
::Graph de
p
recated in 1
.
6
commit
|
commitdiff
|
tree
2008-12-16
cjfields
st
i
fle warnings when passing
s
tring instead o
f
integer
commit
|
commitdiff
|
tree
2008-12-16
cjfields
hash ref, not
array ref
commit
|
commitdiff
|
tree
2008-12-16
cjf
i
e
lds
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjf
i
elds
[
bug 26
3
7]
commit
|
commitdiff
|
tree
2008-12-16
cj
f
ields
[
b
ug
2
637]
commit
|
commitdiff
|
tree
2008-12-16
cj
f
ield
s
[bug 26
3
7
]
commit
|
commitdiff
|
tree
2008-12-15
cjf
i
elds
[
b
ug 2637]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
[bug
27
1
2]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
s
cores
commit
|
commitdiff
|
tree
2008-12-15
cj
f
ields
rem
a
ining tests fo
r
Bio::Tool::EUtiliti
e
s
commit
|
commitdiff
|
tree
2008-12-15
cjfi
e
lds
more t
e
st da
t
a
commit
|
commitdiff
|
tree
2008-12-15
cjfields
Upda
t
es:
commit
|
commitdiff
|
tree
2008-12-13
cjfields
initial
batch
of EUtilParameter
s
t
ests
commit
|
commitdiff
|
tree
2008-12-13
cjf
i
e
lds
einfo
test
s
commit
|
commitdiff
|
tree
2008-12-12
cj
f
i
e
l
d
s
some EU
t
ilities te
s
ts (pa
r
si
n
g from
f
iles)
commit
|
commitdiff
|
tree
2008-12-12
cjfi
e
lds
some test data for Bi
o
::To
o
ls::EUtilities
commit
|
commitdiff
|
tree
2008-12-12
cjfi
e
lds
updates to EUtilities (ge
t
ting ready for docs,
t
ests
.
.
.
commit
|
commitdiff
|
tree
2008-12-12
c
j
fields
Move EUtilParameters to Tools (s
e
ems more appropriate)
commit
|
commitdiff
|
tree
2008-12-11
cjfie
l
ds
fix for bug when
g
etting cached re
s
ponse with file
n
ame
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
cjf
i
elds
sma
l
l p
o
i
n
ter to
wi
k
i page (
w
ill up
d
ate along with
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
cjfields
smal
l
update
commit
|
commitdiff
|
tree
2008-12-11
cjfields
u
p
da
t
es
commit
|
commitdiff
|
tree
2008-12-11
cjfields
return, no
t
'r
e
tur
n
u
n
def'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
r
e
turn, not 'return undef'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug 2699]
commit
|
commitdiff
|
tree
2008-12-11
c
jf
i
elds
[bug
2
699]
commit
|
commitdiff
|
tree
2008-12-11
c
jfields
[bug
2
707]
commit
|
commitdiff
|
tree
2008-12-10
c
j
fi
e
ld
s
R
e
mo
v
ing
f
r
om HEAD (
d
epreca
t
ed
f
o
r
1
.
6)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
mini pod fix
commit
|
commitdiff
|
tree
2008-12-10
c
jfields
update deprecati
o
n list
commit
|
commitdiff
|
tree
2008-12-10
cjfields
remove B
i
o::Gr
a
phi
c
s (separate packag
e
n
o
w)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
[bug 263
7
]
commit
|
commitdiff
|
tree
2008-12-10
cj
f
i
e
lds
Remove d
e
pe
n
d
enc
i
es for Bio::G
r
aphi
c
s an
d
deprecated
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Squash w
a
rn
i
ng
commit
|
commitdiff
|
tree
2008-12-09
cj
f
i
e
lds
diag() o
n
ly on verbose
commit
|
commitdiff
|
tree
2008-12-09
cj
f
ield
s
Fix la
s
t
lo
o
p
tests,
m
ov
e
some to can
_
ok
commit
|
commitdiff
|
tree
2008-12-09
c
j
fields
Modif
y
to test new temp classes an
d
ensure th
a
t added
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfields
update M
a
uricio'
s
email
commit
|
commitdiff
|
tree
2008-12-08
cjfield
s
Upd
a
te Roy's
email
commit
|
commitdiff
|
tree
2008-12-08
cjfi
e
lds
Roy's email (and biop
e
rl
.
org not biop
e
rl
.
e
d
u)
commit
|
commitdiff
|
tree
2008-12-08
cjfi
e
lds
U
p
dated e
m
ails
commit
|
commitdiff
|
tree
2008-12-07
cjf
i
elds
[
bug 2699
]
commit
|
commitdiff
|
tree
2008-12-05
cjfields
Need to
r
etri
e
v
e
the tree for output
commit
|
commitdiff
|
tree
2008-12-05
cjf
i
e
ld
s
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-04
cjfie
l
ds
M
ak
e
Target a true DBL
i
nk
commit
|
commitdiff
|
tree
2008-12-04
cjfield
s
Directory is no
l
onger needed (
H
eikki
s
p
l
i
t thi
s
up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cjfields
add f
o
rce
_
nse t
e
sts
commit
|
commitdiff
|
tree
2008-12-03
cjfields
leave ID undefined if it isn't presen
t
, but allow the
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
Remo
v
e
fil
e
s
accidently
a
dded from last commit
commit
|
commitdiff
|
tree
2008-12-03
cjfiel
d
s
R
e
organ
i
ze Tools tests (needs
s
ome more splitti
n
g
)
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
Remove
(
tes
t
s are
r
edundant, i
n
Consed
.
t
)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge
t
ests and re
m
ove r
e
dundant file
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
Update t
e
st cou
n
t
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge
t
ests
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove redundant
fil
e
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
Remove old fi
l
es
commit
|
commitdiff
|
tree
2008-12-03
c
j
fields
Start Tools move
commit
|
commitdiff
|
tree
2008-12-03
cjfield
s
small updates:
commit
|
commitdiff
|
tree
2008-12-03
cjfields
fo
r
got to increment test
c
ount
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Add a cou
p
l
e of
t
ests for seq_id (smal
l
but
s
igni
f
ican
t
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug
2
450
]
commit
|
commitdiff
|
tree
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