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Remove (merge didn't remove this for some reason)
2008-12-24
cjfie
l
d
s
Remove (merge didn
'
t rem
o
ve this
f
or
som
e
reason)
commit
|
commitdiff
|
tree
2008-12-24
cjf
i
elds
Remov
e
(
m
erge didn'
t
remove this for some re
a
son)
commit
|
commitdiff
|
tree
2008-12-22
cjfi
e
lds
s
ync trunk
w
ith
b
ranch
commit
|
commitdiff
|
tree
2008-12-20
cjfields
5
.
6
.
1 is
min perl
version requ
i
red for all c
o
re m
o
dules now
commit
|
commitdiff
|
tree
2008-12-19
cjfields
up
d
a
te NAME
S
commit
|
commitdiff
|
tree
2008-12-19
c
j
fields
small typo
commit
|
commitdiff
|
tree
2008-12-18
cjfields
ty
p
o
commit
|
commitdiff
|
tree
2008-12-18
cjfie
l
ds
[bug 2714]
commit
|
commitdiff
|
tree
2008-12-17
c
jfi
e
lds
f
i
x
t
e
s
t
number
commit
|
commitdiff
|
tree
2008-12-17
c
jfields
update Test::Warn (
f
ixes Qual
.
t
test pr
o
blems with
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cj
f
ields
missed o
n
e
commit
|
commitdiff
|
tree
2008-12-16
c
jfields
EUtilities rem
o
te tests back
o
nl
i
ne (s
i
m
p
le tests only)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
E
U
t
i
lities re
m
ote te
s
ts back
o
nline (simple tests
o
n
ly)
commit
|
commitdiff
|
tree
2008-12-16
cjfields
You m
u
st actually test data if you want this module
.
.
.
commit
|
commitdiff
|
tree
2008-12-16
cjfields
D
o
n't use p
r
int! Changing to
$self->d
e
bug
o
r
commen
t
ing out
commit
|
commitdiff
|
tree
2008-12-16
cjfields
B
i
o::Graph deprecated i
n
1
.
6
commit
|
commitdiff
|
tree
2008-12-16
cj
f
ields
s
tifle warnings when passi
n
g string ins
t
ead of integer
commit
|
commitdiff
|
tree
2008-12-16
cjfields
hash ref,
n
o
t
array
r
e
f
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjf
i
e
lds
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-16
cjfields
[bug
2637]
commit
|
commitdiff
|
tree
2008-12-16
c
j
fi
e
l
d
s
[bug 263
7
]
commit
|
commitdiff
|
tree
2008-12-15
cj
f
i
e
l
ds
[bug 2637]
commit
|
commitdiff
|
tree
2008-12-15
cjfiel
d
s
[bug 2712
]
commit
|
commitdiff
|
tree
2008-12-15
cjfields
scores
commit
|
commitdiff
|
tree
2008-12-15
cjfi
e
lds
remaining
t
e
s
ts
f
or Bi
o
::To
o
l::
E
Utilities
commit
|
commitdiff
|
tree
2008-12-15
cj
f
i
e
lds
more test data
commit
|
commitdiff
|
tree
2008-12-15
cjfi
e
lds
Updates:
commit
|
commitdiff
|
tree
2008-12-13
cjf
i
elds
ini
t
ial ba
t
c
h of EUtil
P
aram
e
t
e
r
s test
s
commit
|
commitdiff
|
tree
2008-12-13
cjfiel
d
s
ein
f
o te
s
ts
commit
|
commitdiff
|
tree
2008-12-12
c
j
f
ields
some EUtilities tests (par
s
i
ng from files)
commit
|
commitdiff
|
tree
2008-12-12
cjfields
s
ome test data for Bio::To
o
ls::E
U
tiliti
e
s
commit
|
commitdiff
|
tree
2008-12-12
cjfields
upd
a
tes to
E
U
t
i
lities (getting ready for docs, tests
.
.
.
commit
|
commitdiff
|
tree
2008-12-12
cjfi
e
lds
Move EUtilPa
r
amete
r
s to T
o
ols (se
e
m
s
more app
r
opriate)
commit
|
commitdiff
|
tree
2008-12-11
cjfields
fix for
b
ug when gettin
g
cach
e
d respons
e
wi
t
h filena
m
e
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
cjfields
smal
l
pointer to wiki page (wil
l
u
pdate along with
.
.
.
commit
|
commitdiff
|
tree
2008-12-11
cjfields
small
update
commit
|
commitdiff
|
tree
2008-12-11
cjfie
l
ds
updates
commit
|
commitdiff
|
tree
2008-12-11
cjfields
return, not 'return
u
ndef'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
return, not '
r
eturn un
d
ef'
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug 2699]
commit
|
commitdiff
|
tree
2008-12-11
cjfiel
d
s
[bug
2699]
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[b
u
g 27
0
7]
commit
|
commitdiff
|
tree
2008-12-10
c
jfields
Removin
g
from HEAD
(
deprecated f
o
r 1
.
6)
commit
|
commitdiff
|
tree
2008-12-10
c
j
fields
mini pod fix
commit
|
commitdiff
|
tree
2008-12-10
cjfield
s
update deprecation lis
t
commit
|
commitdiff
|
tree
2008-12-10
cjfields
r
emove B
i
o::
G
raphics (separate pac
k
age now)
commit
|
commitdiff
|
tree
2008-12-10
cjfields
[bug 2
6
37
]
commit
|
commitdiff
|
tree
2008-12-10
cjfields
Remove depe
n
dencie
s
for Bio::Graph
i
cs and dep
r
ecat
e
d
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
c
j
fields
Squ
a
sh warning
commit
|
commitdiff
|
tree
2008-12-09
c
j
fiel
d
s
d
iag() only on verbose
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Fix l
a
st loop tests, mo
v
e
some to can_ok
commit
|
commitdiff
|
tree
2008-12-09
cjfiel
d
s
Modify to test
new temp classes and ensure that added
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfi
e
lds
u
pda
t
e Mauricio's
e
mail
commit
|
commitdiff
|
tree
2008-12-08
cjfields
U
pd
a
t
e Roy's e
m
a
i
l
commit
|
commitdiff
|
tree
2008-12-08
cjfiel
d
s
Roy's email (a
n
d
bioperl
.
org not
bioper
l
.
edu)
commit
|
commitdiff
|
tree
2008-12-08
c
jfields
U
p
dated emai
l
s
commit
|
commitdiff
|
tree
2008-12-07
c
j
f
ields
[bu
g
2699]
commit
|
commitdiff
|
tree
2008-12-05
c
j
fields
Need to retrie
v
e the tre
e
f
or output
commit
|
commitdiff
|
tree
2008-12-05
cjfields
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-04
cj
f
ields
Make Target a true DBLi
n
k
commit
|
commitdiff
|
tree
2008-12-04
cjfields
D
i
rec
t
ory
i
s no
l
onge
r
nee
d
ed
(Heikki s
p
lit this up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cj
f
i
e
lds
a
dd forc
e
_nse tests
commit
|
commitdiff
|
tree
2008-12-03
cjfields
l
ea
v
e ID undefined if i
t
is
n
't present, but
a
llow the
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove
fi
l
e
s acci
d
ently add
e
d from la
s
t c
o
mm
i
t
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
l
d
s
Reorgan
i
ze Tool
s
tests
(
nee
d
s some more s
p
li
t
ting)
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
Re
m
ove
(
te
s
ts
are r
e
dundant, in Consed
.
t)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge tests
and remov
e
redundant file
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
Up
d
ate test c
o
unt
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge t
e
sts
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
R
em
o
ve redun
d
ant fi
l
e
commit
|
commitdiff
|
tree
2008-12-03
cjfield
s
Remove old fi
l
es
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
Start Tools m
o
v
e
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
small u
p
d
ates
:
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
forgot to increment
tes
t
c
o
unt
commit
|
commitdiff
|
tree
2008-12-03
cjfield
s
Add a
co
u
ple
o
f
t
ests f
o
r seq_i
d
(small but sign
i
ficant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug
2
450
]
commit
|
commitdiff
|
tree
2008-12-02
cjfiel
d
s
[bug
2450
]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug 2
4
5
0
]
commit
|
commitdiff
|
tree
2008-12-02
c
jfie
l
d
s
[b
u
g 2
4
50]
commit
|
commitdiff
|
tree
2008-12-02
cjfiel
d
s
so
m
e pod updates
commit
|
commitdiff
|
tree
2008-12-02
cjfiel
d
s
[bu
g
2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfie
l
ds
fi
x
erroneousl
y
rename
d
s
t
ockholm
tests
commit
|
commitdiff
|
tree
2008-12-02
c
j
f
ields
small pod fix
commit
|
commitdiff
|
tree
2008-11-30
c
j
fields
sil
e
nce G
u
essSeq
F
ormat
.
t warnings (not
s
ure if o
l
d
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
elds
rearrange to
a
voi
d
unnecessary warni
n
gs
commit
|
commitdiff
|
tree
2008-11-28
c
j
fie
l
ds
Add warning for
missing da
t
a (rea
l
bug)
commit
|
commitdiff
|
tree
2008-11-28
cjfields
ha
s
h r
e
f, no
t
a hash
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
e
lds
tes
t
f
ile n
a
me and
t
est # correction
commit
|
commitdiff
|
tree
2008-11-28
cjfields
correct
t
est file name
commit
|
commitdiff
|
tree
2008-11-28
cj
f
ields
'::', not ':'
commit
|
commitdiff
|
tree
2008-11-28
cjfiel
d
s
r
enam
e
(re
c
ursive test
s
t
h
ink this is a te
s
t file)
commit
|
commitdiff
|
tree
2008-11-28
cjfie
l
ds
recu
r
se i
n
to
t
e
s
t
subdir
e
ct
o
ries (mea
n
s any no
n
-
test
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
elds
re
m
o
v
e
redundant
c
o
p
y
commit
|
commitdiff
|
tree
2008-11-28
c
jfields
move into directory
structur
e
commit
|
commitdiff
|
tree
2008-11-28
cjfield
s
mo
v
e
into directory s
t
ructure (DaveM++)
commit
|
commitdiff
|
tree
2008-11-26
cjfi
e
lds
[bu
g
2567]
commit
|
commitdiff
|
tree
2008-11-26
cjfields
Redu
n
d
a
nt; file was renamed
S
ea
r
chIO_bl
a
st_pull
.
t
.
commit
|
commitdiff
|
tree
2008-11-26
cj
f
ields
[b
u
g 2686]
commit
|
commitdiff
|
tree
2008-11-26
cjfields
fix s
u
bv
e
rsion ta
g
s
commit
|
commitdiff
|
tree
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