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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
c
j
fie
l
ds
Sy
n
c tha
t
last bit with
trunk
.
I'll have to merge
.
.
.
commit
|
commitdiff
|
tree
2009-01-06
cjfields
Sync with trunk
commit
|
commitdiff
|
tree
2009-01-05
cj
f
ields
Bump
R
C to 2; will
tag, bag,
a
n
d ship
tomorrow aft
e
r
.
.
.
commit
|
commitdiff
|
tree
2009-01-05
c
jfields
Sync with
trunk
commit
|
commitdiff
|
tree
2009-01-04
c
jfields
sync with
t
ru
n
k
commit
|
commitdiff
|
tree
2009-01-02
cjfields
s
ync from
t
runk
commit
|
commitdiff
|
tree
2009-01-02
cjfi
e
l
d
s
sync last commit
commit
|
commitdiff
|
tree
2009-01-02
cjfields
sync w
i
t
h
HE
A
D
commit
|
commitdiff
|
tree
2009-01-02
cjfie
l
ds
Remove t/Graphics
commit
|
commitdiff
|
tree
2009-01-02
cjfi
e
lds
Remov
e
Bio::Grap
h
ics
e
x
a
mple
s
and scripts
commit
|
commitdiff
|
tree
2008-12-26
c
j
fiel
d
s
empty dir
e
cto
r
y
commit
|
commitdiff
|
tree
2008-12-26
cj
f
ields
Emp
t
y di
r
ectory
commit
|
commitdiff
|
tree
2008-12-26
cjfields
empty
directory
commit
|
commitdiff
|
tree
2008-12-26
cjfie
l
ds
sync wi
t
h trunk
commit
|
commitdiff
|
tree
2008-12-24
cjfields
s
m
all clarific
a
t
ion
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Add li
s
t of bugs slated for the
1
.
6
.
x ser
i
es
commit
|
commitdiff
|
tree
2008-12-24
c
jfield
s
Updates
f
or RC1
commit
|
commitdiff
|
tree
2008-12-24
c
jfields
remove M
i
c
roa
r
ray de
p
s
commit
|
commitdiff
|
tree
2008-12-24
cjfi
e
lds
S
m
al
l
fix
f
or te
s
ts JIC th
e
re is a network error
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Sync
branch
w
ith trunk
commit
|
commitdiff
|
tree
2008-12-24
cjfields
R
emo
v
e
Bio::Microarray from br
a
nch (still
in development
.
.
.
commit
|
commitdiff
|
tree
2008-12-24
cjfie
l
ds
R
e
move (merge
d
idn't remove this for
s
ome re
a
so
n
)
commit
|
commitdiff
|
tree
2008-12-24
c
jfield
s
R
e
move (merge d
i
dn't
r
emo
v
e this for so
m
e reason)
commit
|
commitdiff
|
tree
2008-12-22
c
j
fields
sync trunk
w
i
t
h
bran
c
h
commit
|
commitdiff
|
tree
2008-12-20
cjfields
5
.
6
.
1 is min perl
version req
u
ired
f
or all core
m
odules now
commit
|
commitdiff
|
tree
2008-12-19
cjfiel
d
s
update NAMES
commit
|
commitdiff
|
tree
2008-12-19
cjfiel
d
s
small typo
commit
|
commitdiff
|
tree
2008-12-18
cjfields
typo
commit
|
commitdiff
|
tree
2008-12-18
cjfields
[bug 2714
]
commit
|
commitdiff
|
tree
2008-12-17
cj
f
iel
d
s
fix test nu
m
b
e
r
commit
|
commitdiff
|
tree
2008-12-17
cjfields
upd
a
te Test::W
a
rn (fix
e
s
Qual
.
t tes
t
p
roblem
s
with
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjfields
misse
d
one
commit
|
commitdiff
|
tree
2008-12-16
cjfield
s
EUtilities remote
t
ests back online (sim
p
le test
s
only)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
EUtilities remote tests back
online
(
simple tests only)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
You must a
c
tuall
y
test d
a
t
a if
yo
u
wa
n
t this mo
d
ule
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjfiel
d
s
Don't use prin
t
!
Changing to $self->debug or comm
e
ntin
g
out
commit
|
commitdiff
|
tree
2008-12-16
c
jf
i
elds
B
io::Gra
p
h deprecated in 1
.
6
commit
|
commitdiff
|
tree
2008-12-16
cj
f
ields
s
tifl
e
w
arning
s
when passing
s
tring instead of integer
commit
|
commitdiff
|
tree
2008-12-16
c
j
f
ields
h
a
sh re
f
, n
o
t ar
r
ay ref
commit
|
commitdiff
|
tree
2008-12-16
cjf
i
e
l
ds
[b
u
g 2637
]
commit
|
commitdiff
|
tree
2008-12-16
cjfi
e
lds
[bug
2637]
commit
|
commitdiff
|
tree
2008-12-16
cjfie
l
ds
[bug 2637
]
commit
|
commitdiff
|
tree
2008-12-16
c
j
fie
l
ds
[
bug 263
7
]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-15
cj
f
iel
d
s
[bu
g
2
7
12]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
scores
commit
|
commitdiff
|
tree
2008-12-15
cjfields
r
e
maining
t
ests for Bio::Tool::EUtiliti
e
s
commit
|
commitdiff
|
tree
2008-12-15
c
jfields
more
t
e
st data
commit
|
commitdiff
|
tree
2008-12-15
cjfields
Updates:
commit
|
commitdiff
|
tree
2008-12-13
cjfields
ini
t
ial bat
c
h
of EUtilParameter
s
te
s
ts
commit
|
commitdiff
|
tree
2008-12-13
cjfi
e
ld
s
ein
f
o tes
t
s
commit
|
commitdiff
|
tree
2008-12-12
cj
f
iel
d
s
s
ome E
U
t
iliti
e
s
tes
t
s (parsing from files)
commit
|
commitdiff
|
tree
2008-12-12
c
jf
i
elds
some
test
dat
a
for Bio::Tools:
:
EUtilities
commit
|
commitdiff
|
tree
2008-12-12
cjfield
s
updates
t
o EUtilities
(
gett
i
ng rea
d
y
f
or docs, tests
.
.
.
commit
|
commitdiff
|
tree
2008-12-12
cjfields
M
o
ve EUtilPar
a
meters
to Tools
(seems more appropri
a
te
)
commit
|
commitdiff
|
tree
2008-12-11
cjfie
l
ds
fix for
b
ug w
h
e
n getting cached re
s
ponse with fil
e
name
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
c
j
fields
sm
a
l
l pointer to wiki page (will update along with
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
c
jfields
small
update
commit
|
commitdiff
|
tree
2008-12-11
cjfields
updates
commit
|
commitdiff
|
tree
2008-12-11
cjfields
ret
u
rn, not 'ret
u
rn
u
ndef'
commit
|
commitdiff
|
tree
2008-12-11
c
j
fields
return, not 'ret
u
r
n
undef'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug 2699
]
commit
|
commitdiff
|
tree
2008-12-11
cjfi
e
lds
[bug 2699]
commit
|
commitdiff
|
tree
2008-12-11
cj
f
ields
[bu
g
2707]
commit
|
commitdiff
|
tree
2008-12-10
cjfields
Removing from HEAD (de
p
r
ecated for
1
.
6
)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
m
i
ni pod fix
commit
|
commitdiff
|
tree
2008-12-10
cj
f
ields
upda
t
e deprecation list
commit
|
commitdiff
|
tree
2008-12-10
c
j
fie
l
d
s
remove B
i
o::Graphics (separ
a
te package
now)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-10
c
j
fields
Rem
o
ve dependencies for Bio::Graphics an
d
deprecated
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfi
e
lds
Squa
s
h warning
commit
|
commitdiff
|
tree
2008-12-09
cjfields
dia
g
() only
on verbose
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Fix last loop tests, move some to c
a
n_o
k
commit
|
commitdiff
|
tree
2008-12-09
cjfields
M
o
d
i
fy to
t
est new tem
p
c
l
asses and ensure that added
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfields
update Maur
i
cio's em
a
il
commit
|
commitdiff
|
tree
2008-12-08
cjfields
Update Roy's
email
commit
|
commitdiff
|
tree
2008-12-08
cjfie
l
ds
Ro
y
's email
(
and
b
iope
r
l
.
org not b
i
operl
.
edu)
commit
|
commitdiff
|
tree
2008-12-08
cjfi
e
l
d
s
Updated ema
i
ls
commit
|
commitdiff
|
tree
2008-12-07
cj
f
ield
s
[bug 2
6
99]
commit
|
commitdiff
|
tree
2008-12-05
c
j
f
i
e
l
d
s
Need to retri
e
ve the
t
ree for output
commit
|
commitdiff
|
tree
2008-12-05
c
jf
i
elds
[
b
u
g 2450]
commit
|
commitdiff
|
tree
2008-12-04
c
j
fi
e
lds
Make Target a true D
B
Link
commit
|
commitdiff
|
tree
2008-12-04
cj
f
ields
Di
r
e
ctory is no longer needed (He
i
k
ki s
p
lit this
up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
c
jfi
e
lds
add forc
e
_nse tests
commit
|
commitdiff
|
tree
2008-12-03
cjfields
leave ID un
d
efined if it i
s
n
'
t
pres
e
nt, but allow
t
h
e
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
Remove files accidently
a
d
ded
from last com
m
it
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
R
e
o
r
g
anize Tools tests (needs
some more
splitting)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove (
t
est
s
are redundant,
in Conse
d
.
t)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge tests and rem
o
ve redundant file
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Update
t
est count
commit
|
commitdiff
|
tree
2008-12-03
c
jfie
l
ds
Mer
g
e
te
s
ts
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove redun
d
ant
f
i
l
e
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
R
e
move old files
commit
|
commitdiff
|
tree
2008-12-03
cjfields
S
tart Tools mo
v
e
commit
|
commitdiff
|
tree
2008-12-03
cjf
i
el
d
s
small updates:
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
forgot
t
o increment test count
commit
|
commitdiff
|
tree
2008-12-03
cj
f
iel
d
s
Add a
c
oup
l
e of te
s
ts
f
or seq
_
id (small but signi
f
icant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfi
e
lds
[bug 2450
]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[
b
u
g 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug 2450]
commit
|
commitdiff
|
tree
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