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Sync that last bit with trunk. I'll have to merge that over to the tag for the next RC.
2009-01-06
cjf
i
elds
Sy
n
c that last
bit with tru
n
k
.
I'll have to me
r
ge
.
.
.
commit
|
commitdiff
|
tree
2009-01-06
cjfields
Sync w
i
th tr
u
nk
commit
|
commitdiff
|
tree
2009-01-05
cjfields
Bump
RC to 2
;
will
t
ag, bag, and s
h
ip tomorrow after
.
.
.
commit
|
commitdiff
|
tree
2009-01-05
cjfi
e
l
d
s
S
ync
wi
t
h trunk
commit
|
commitdiff
|
tree
2009-01-04
cjfie
l
ds
sync
w
ith trunk
commit
|
commitdiff
|
tree
2009-01-02
cjfields
sync from trun
k
commit
|
commitdiff
|
tree
2009-01-02
cjfields
sync l
a
st co
m
mit
commit
|
commitdiff
|
tree
2009-01-02
cj
f
ields
sync wit
h
HEAD
commit
|
commitdiff
|
tree
2009-01-02
cjfields
Rem
o
ve t
/
Graph
i
cs
commit
|
commitdiff
|
tree
2009-01-02
cjfields
R
e
mov
e
Bio::Graphi
c
s
exampl
e
s
a
n
d
scri
p
ts
commit
|
commitdiff
|
tree
2008-12-26
cjfields
e
mpty director
y
commit
|
commitdiff
|
tree
2008-12-26
cjfields
Emp
t
y
di
r
e
ct
o
ry
commit
|
commitdiff
|
tree
2008-12-26
cjfiel
d
s
empt
y
directory
commit
|
commitdiff
|
tree
2008-12-26
cjfields
s
ync with trunk
commit
|
commitdiff
|
tree
2008-12-24
c
jf
i
elds
sm
a
ll c
l
arification
commit
|
commitdiff
|
tree
2008-12-24
cjf
i
elds
Ad
d
list
o
f bugs slated for the 1
.
6
.
x series
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Updates for RC1
commit
|
commitdiff
|
tree
2008-12-24
cjfield
s
r
emove Microarray deps
commit
|
commitdiff
|
tree
2008-12-24
cjfiel
d
s
S
m
all fix for tes
t
s JIC there
i
s a network error
commit
|
commitdiff
|
tree
2008-12-24
c
jfield
s
Sync br
a
nch with t
r
unk
commit
|
commitdiff
|
tree
2008-12-24
c
jfields
Remove Bio::Microarray from bran
c
h (s
t
ill in develop
m
ent
.
.
.
commit
|
commitdiff
|
tree
2008-12-24
cjfiel
d
s
Remove (me
r
g
e
di
d
n't remo
v
e this for s
o
me reason)
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Re
m
ove (merge didn't
r
e
m
ove
this for
s
ome r
e
ason)
commit
|
commitdiff
|
tree
2008-12-22
c
j
fields
sync tr
u
nk with br
a
nch
commit
|
commitdiff
|
tree
2008-12-20
c
jfields
5
.
6
.
1
is min pe
r
l ve
r
sion r
e
quired for all core modul
e
s
n
ow
commit
|
commitdiff
|
tree
2008-12-19
cjfiel
d
s
update N
A
MES
commit
|
commitdiff
|
tree
2008-12-19
cjfields
s
mall typo
commit
|
commitdiff
|
tree
2008-12-18
cjfi
e
lds
typo
commit
|
commitdiff
|
tree
2008-12-18
cjfields
[b
u
g 2714
]
commit
|
commitdiff
|
tree
2008-12-17
cjfields
fix te
s
t number
commit
|
commitdiff
|
tree
2008-12-17
c
jfi
e
lds
u
pda
t
e
Test::Warn (
f
ixes Qu
a
l
.
t test p
r
oblem
s
with
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjf
i
e
l
d
s
missed one
commit
|
commitdiff
|
tree
2008-12-16
cjfields
EUtilities remote tes
t
s back online (simple t
e
sts only)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
EUtilities r
e
mo
t
e tests back online (
s
i
m
ple tests
only)
commit
|
commitdiff
|
tree
2008-12-16
cjfiel
d
s
You mu
s
t ac
t
ually test data if
y
ou want thi
s
modu
l
e
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjf
i
eld
s
Don't use pri
n
t!
Changing to $s
e
lf->debug or
c
o
mmenting out
commit
|
commitdiff
|
tree
2008-12-16
c
jfiel
d
s
B
io::
G
raph
depre
c
ate
d
i
n 1
.
6
commit
|
commitdiff
|
tree
2008-12-16
c
j
fields
stifle warnings when passing string
instead of
integer
commit
|
commitdiff
|
tree
2008-12-16
cjfie
l
ds
hash
ref, not array
r
e
f
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug 2637
]
commit
|
commitdiff
|
tree
2008-12-16
cjfie
l
ds
[
b
ug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug
2
637]
commit
|
commitdiff
|
tree
2008-12-15
c
jfie
l
ds
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-15
c
j
fields
[bug
271
2
]
commit
|
commitdiff
|
tree
2008-12-15
cjfield
s
scores
commit
|
commitdiff
|
tree
2008-12-15
cjfi
e
lds
rema
i
ning tests for Bio::Tool::EUt
i
lities
commit
|
commitdiff
|
tree
2008-12-15
c
j
f
ields
mo
r
e test
d
ata
commit
|
commitdiff
|
tree
2008-12-15
c
j
fields
U
pdates:
commit
|
commitdiff
|
tree
2008-12-13
cjf
i
elds
initi
a
l batch
o
f EUtilPara
m
eters
t
ests
commit
|
commitdiff
|
tree
2008-12-13
cjf
i
elds
einfo tes
t
s
commit
|
commitdiff
|
tree
2008-12-12
cjfie
l
ds
so
m
e EUtilities tests (parsi
n
g from fi
l
es)
commit
|
commitdiff
|
tree
2008-12-12
cjfields
some
te
s
t data for Bio::Tools::EUtiliti
e
s
commit
|
commitdiff
|
tree
2008-12-12
cjfields
updates to EUtil
i
ti
e
s (gett
i
ng ready for
d
ocs,
t
ests
.
.
.
commit
|
commitdiff
|
tree
2008-12-12
cjfiel
d
s
Move
E
Ut
i
lPa
r
ameters to Tools (seems more appr
o
priate)
commit
|
commitdiff
|
tree
2008-12-11
cjfields
fix for bug when getting cached res
p
o
nse
w
ith filename
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
cjfields
small p
o
inter to wik
i
p
a
ge (will update along with
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
cjfields
sm
a
ll
update
commit
|
commitdiff
|
tree
2008-12-11
cjfields
u
p
dates
commit
|
commitdiff
|
tree
2008-12-11
cjfiel
d
s
r
e
t
urn, n
o
t 'return u
n
def'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
return, not 'return
u
n
d
e
f'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[
b
ug 2699]
commit
|
commitdiff
|
tree
2008-12-11
c
jfields
[bug 2699
]
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[
b
ug 2707]
commit
|
commitdiff
|
tree
2008-12-10
cjfields
Re
m
o
v
ing from HEAD (deprecated
for 1
.
6)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
mini pod
f
i
x
commit
|
commitdiff
|
tree
2008-12-10
cjfields
update depre
c
a
t
io
n
list
commit
|
commitdiff
|
tree
2008-12-10
c
j
fields
remov
e
Bio::Graphics
(
separ
a
te
package now)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-10
c
j
fie
l
ds
Remove d
e
pendencies for
B
io::Graphics
a
nd deprecat
e
d
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cj
f
ields
Squash warning
commit
|
commitdiff
|
tree
2008-12-09
cjfields
diag() only on ve
r
bose
commit
|
commitdiff
|
tree
2008-12-09
c
j
fields
Fix last loop
t
e
sts,
m
ove som
e
to can_ok
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Modify to test new t
e
mp classes and
e
nsure that add
e
d
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfiel
d
s
update Maurici
o
's
e
mail
commit
|
commitdiff
|
tree
2008-12-08
cj
f
ield
s
Update
R
oy
'
s email
commit
|
commitdiff
|
tree
2008-12-08
c
jfield
s
R
oy's email
(and bioperl
.
o
rg not bio
p
erl
.
e
du
)
commit
|
commitdiff
|
tree
2008-12-08
cjfiel
d
s
U
p
dated emails
commit
|
commitdiff
|
tree
2008-12-07
c
j
fields
[
bug 2699]
commit
|
commitdiff
|
tree
2008-12-05
cjf
i
elds
Nee
d
to r
e
t
ri
e
ve the tr
e
e for
o
utput
commit
|
commitdiff
|
tree
2008-12-05
cj
f
iel
d
s
[bug 2
4
5
0
]
commit
|
commitdiff
|
tree
2008-12-04
cj
f
ield
s
M
ake Target a t
r
ue DBLink
commit
|
commitdiff
|
tree
2008-12-04
cjfiel
d
s
Dir
e
ctory is no longer needed (Heikki split this
up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cjfields
add force_
n
se tests
commit
|
commitdiff
|
tree
2008-12-03
cjfields
leave ID undefined if it isn
'
t
p
r
esent, but
allow the
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
c
j
f
i
elds
Remo
v
e files accidently
a
dd
e
d from
l
a
st commit
commit
|
commitdiff
|
tree
2008-12-03
cj
f
i
e
l
d
s
Reo
r
gani
z
e Too
l
s
tests
(
needs
some more spl
i
ttin
g
)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove (tests are re
d
und
a
nt
,
i
n Consed
.
t)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge tests and
r
emo
v
e
r
e
d
undant fi
l
e
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Update
t
est
co
u
n
t
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Mer
g
e
t
e
sts
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remo
v
e redun
d
ant file
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
Remove ol
d
files
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Start
Tools
m
ove
commit
|
commitdiff
|
tree
2008-12-03
cjfields
sm
a
ll
u
pdates:
commit
|
commitdiff
|
tree
2008-12-03
cjfields
forgot
t
o i
n
c
r
ement t
e
st count
commit
|
commitdiff
|
tree
2008-12-03
cjfie
l
ds
Add a couple of tests f
o
r se
q
_i
d
(small but significant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
c
j
f
i
elds
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
c
jfield
s
[bug 2450]
commit
|
commitdiff
|
tree
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