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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
cj
f
ields
S
ync that last bit wit
h
t
r
unk
.
I
'
ll have to
m
erge
.
.
.
commit
|
commitdiff
|
tree
2009-01-06
c
jfields
Sync with trunk
commit
|
commitdiff
|
tree
2009-01-05
cjfields
Bump RC to 2; wi
l
l tag, bag,
a
nd
s
h
i
p to
m
orrow aft
e
r
.
.
.
commit
|
commitdiff
|
tree
2009-01-05
cjfi
e
ld
s
Sync
with trunk
commit
|
commitdiff
|
tree
2009-01-04
cjfie
l
ds
sync
w
i
th trunk
commit
|
commitdiff
|
tree
2009-01-02
cjfields
sync from
t
runk
commit
|
commitdiff
|
tree
2009-01-02
cjfiel
d
s
sync last commit
commit
|
commitdiff
|
tree
2009-01-02
cjfields
sync with HEAD
commit
|
commitdiff
|
tree
2009-01-02
c
jfields
R
e
move t/G
r
aphics
commit
|
commitdiff
|
tree
2009-01-02
cjfields
Remo
v
e Bio::
G
raphics exa
m
p
l
es
and script
s
commit
|
commitdiff
|
tree
2008-12-26
cjfields
e
mpty
d
i
rectory
commit
|
commitdiff
|
tree
2008-12-26
cjfields
Empty
d
i
r
ectory
commit
|
commitdiff
|
tree
2008-12-26
c
j
fi
e
lds
empty di
r
ect
o
ry
commit
|
commitdiff
|
tree
2008-12-26
cjfields
sync with t
r
unk
commit
|
commitdiff
|
tree
2008-12-24
cjfield
s
small clarif
i
cation
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Add list of bugs sla
t
ed for the 1
.
6
.
x series
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Upd
a
tes
for RC1
commit
|
commitdiff
|
tree
2008-12-24
cjfi
e
l
ds
remove
Microarray deps
commit
|
commitdiff
|
tree
2008-12-24
c
jfie
l
ds
Smal
l
fix fo
r
tests JIC there
i
s a
n
etwo
r
k
err
o
r
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Sync
b
ra
n
ch with trunk
commit
|
commitdiff
|
tree
2008-12-24
cjfields
R
e
move Bi
o
::M
i
croarray from
branch (
s
till in developm
e
n
t
.
.
.
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Re
m
ove
(merge didn
'
t remove this fo
r
some reason)
commit
|
commitdiff
|
tree
2008-12-24
cjfields
Rem
o
ve (mer
g
e
didn't remove this for some reason)
commit
|
commitdiff
|
tree
2008-12-22
cjf
i
elds
sync trunk
with branc
h
commit
|
commitdiff
|
tree
2008-12-20
c
j
fiel
d
s
5
.
6
.
1 i
s
min per
l
vers
i
on require
d
for all c
o
re
modules
now
commit
|
commitdiff
|
tree
2008-12-19
cj
f
ields
update NA
M
ES
commit
|
commitdiff
|
tree
2008-12-19
cjfields
smal
l
typo
commit
|
commitdiff
|
tree
2008-12-18
cjfields
typo
commit
|
commitdiff
|
tree
2008-12-18
cjfields
[bug
2
714]
commit
|
commitdiff
|
tree
2008-12-17
cjfields
fix test number
commit
|
commitdiff
|
tree
2008-12-17
cjfields
update Test::
W
arn (fixes Qual
.
t test problems wi
t
h
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjfi
e
lds
miss
e
d
one
commit
|
commitdiff
|
tree
2008-12-16
cjfields
EUtilities re
m
ote tes
t
s back
o
nline (simple te
s
t
s
onl
y
)
commit
|
commitdiff
|
tree
2008-12-16
cjfiel
d
s
E
U
tilities r
e
mote tests back online (simpl
e
tests only
)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
Y
ou must a
c
tually te
s
t
da
t
a if you
w
a
n
t
this module
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjfi
e
lds
Don't us
e
print! Changing to $self->debug or commenting
o
ut
commit
|
commitdiff
|
tree
2008-12-16
cjfields
Bio::Gra
p
h deprecated
i
n 1
.
6
commit
|
commitdiff
|
tree
2008-12-16
c
jfields
sti
f
le
w
arnings when passing string
inste
a
d of integer
commit
|
commitdiff
|
tree
2008-12-16
c
j
fie
l
ds
hash ref, no
t
a
r
ray ref
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
c
jfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug
263
7
]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
[b
u
g 271
2
]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
scores
commit
|
commitdiff
|
tree
2008-12-15
cjfield
s
remaini
n
g tests for Bio::To
o
l::EUt
i
lit
i
es
commit
|
commitdiff
|
tree
2008-12-15
cjfi
e
lds
m
o
re test data
commit
|
commitdiff
|
tree
2008-12-15
cjfields
Up
d
ates:
commit
|
commitdiff
|
tree
2008-12-13
cjfields
initial batch of EUtilParame
t
ers t
e
sts
commit
|
commitdiff
|
tree
2008-12-13
cjfiel
d
s
einfo t
e
sts
commit
|
commitdiff
|
tree
2008-12-12
cjfields
s
o
me EUtilit
i
e
s tests (
p
arsing from
files)
commit
|
commitdiff
|
tree
2008-12-12
cjfields
some tes
t
data for Bio::
T
o
o
ls::EUtiliti
e
s
commit
|
commitdiff
|
tree
2008-12-12
c
j
f
iel
d
s
update
s
to EUt
i
lities (getting
read
y
for docs, tests
.
.
.
commit
|
commitdiff
|
tree
2008-12-12
c
j
field
s
Move EUti
l
Pa
r
ameters
t
o
Tool
s
(seems more appropriate)
commit
|
commitdiff
|
tree
2008-12-11
cjfields
fix
for
b
ug when getting c
a
ched response w
i
th f
i
len
a
me
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
c
j
fields
small po
i
n
ter to wiki page
(will update along
wi
t
h
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
c
jfields
s
mall updat
e
commit
|
commitdiff
|
tree
2008-12-11
cjf
i
elds
updates
commit
|
commitdiff
|
tree
2008-12-11
cjfields
return, not
'
return unde
f
'
commit
|
commitdiff
|
tree
2008-12-11
cjfie
l
ds
return,
n
ot 'return
unde
f
'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug
2699]
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug 2699]
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug 2707]
commit
|
commitdiff
|
tree
2008-12-10
c
jf
i
elds
Removing fro
m
HEA
D
(deprecate
d
fo
r
1
.
6)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
m
ini
p
o
d fix
commit
|
commitdiff
|
tree
2008-12-10
cjfields
updat
e
deprecat
i
o
n
list
commit
|
commitdiff
|
tree
2008-12-10
c
jfields
remove
B
io::Graphics (separate pa
c
kage now)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-10
cj
f
ields
Remove dependencie
s
for Bi
o
:
:
Gra
p
hics and deprecated
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfiel
d
s
Sq
u
ash war
n
ing
commit
|
commitdiff
|
tree
2008-12-09
cjfields
diag() onl
y
on verbose
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Fix last
loop tes
t
s
, move som
e
to can_ok
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Modify to test new temp
c
la
s
ses and
ensure tha
t
adde
d
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfields
u
pdate
Maurici
o
's email
commit
|
commitdiff
|
tree
2008-12-08
c
j
fi
e
lds
U
pdate Roy's email
commit
|
commitdiff
|
tree
2008-12-08
cjfields
Roy's e
m
a
i
l (and bioperl
.
org not bi
o
perl
.
ed
u
)
commit
|
commitdiff
|
tree
2008-12-08
cjfields
Updated email
s
commit
|
commitdiff
|
tree
2008-12-07
cjfields
[bug 2699]
commit
|
commitdiff
|
tree
2008-12-05
c
jfield
s
Need to r
e
t
r
ieve the
tree
for output
commit
|
commitdiff
|
tree
2008-12-05
cjfi
e
lds
[bug
2
450]
commit
|
commitdiff
|
tree
2008-12-04
c
jfields
Make Target
a true DBLin
k
commit
|
commitdiff
|
tree
2008-12-04
cjf
i
elds
Di
r
ector
y
is no
long
e
r nee
d
ed (Heikki s
p
lit this up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
a
dd
fo
r
c
e
_nse tests
commit
|
commitdiff
|
tree
2008-12-03
cjfields
leave ID
undef
i
ned if
it isn't present
,
b
ut all
o
w
the
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
c
j
fields
Remove files acc
i
d
ently adde
d
fro
m
last commit
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
Reorganize Tools tes
t
s (
n
eeds some m
o
re s
p
litting)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove (tests are r
e
dundan
t
,
in C
o
nsed
.
t)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge t
e
s
t
s and r
e
move redu
n
dant
f
ile
commit
|
commitdiff
|
tree
2008-12-03
c
j
f
ie
l
ds
U
pdate
t
e
s
t count
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge tests
commit
|
commitdiff
|
tree
2008-12-03
c
jfiel
d
s
Remove r
e
dundan
t
file
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
ld
s
Remove old f
i
les
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Start To
o
l
s mo
v
e
commit
|
commitdiff
|
tree
2008-12-03
c
j
fields
s
m
all updates:
commit
|
commitdiff
|
tree
2008-12-03
c
j
fields
forgot to in
c
rement t
e
st count
commit
|
commitdiff
|
tree
2008-12-03
cjfield
s
A
d
d a couple
o
f
tests for se
q
_id
(
s
m
all but significant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfiel
d
s
[
b
ug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug 24
5
0]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug
2450
]
commit
|
commitdiff
|
tree
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