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[bug 2637]
2008-12-10
cjfields
[
b
u
g
2637]
commit
|
commitdiff
|
tree
2008-12-10
cjf
i
elds
R
emo
v
e dependencies
f
or
Bio::Graphics and
de
p
recated
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
cjfields
S
q
u
ash warnin
g
commit
|
commitdiff
|
tree
2008-12-09
cjfields
d
iag() onl
y
on verbose
commit
|
commitdiff
|
tree
2008-12-09
cjfi
e
ld
s
Fi
x
last
l
oop test
s
, mov
e
some t
o
c
an_o
k
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Modif
y
to
t
est new temp classes
a
nd ensure that added
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
c
j
fields
update Mauricio's emai
l
commit
|
commitdiff
|
tree
2008-12-08
cjfields
Update Roy's email
commit
|
commitdiff
|
tree
2008-12-08
cjfields
Roy's
e
mail (and bioperl
.
org
n
o
t bio
p
erl
.
edu)
commit
|
commitdiff
|
tree
2008-12-08
cjfields
U
p
d
ated emails
commit
|
commitdiff
|
tree
2008-12-07
cjfields
[bug 2699]
commit
|
commitdiff
|
tree
2008-12-05
cjfields
Nee
d
to ret
r
ieve the tree for ou
t
put
commit
|
commitdiff
|
tree
2008-12-05
c
j
field
s
[bug
2450]
commit
|
commitdiff
|
tree
2008-12-04
cjfields
Make Target a true
DBLink
commit
|
commitdiff
|
tree
2008-12-04
cjfiel
d
s
D
irect
o
ry i
s
no longer needed
(Heikki spli
t
this up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cjfields
add fo
r
ce_nse tests
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
leave ID undef
i
ned if
it isn't presen
t
, but allow the
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cjfiel
d
s
Remove f
i
les accidently
added
from la
s
t commit
commit
|
commitdiff
|
tree
2008-12-03
cjfie
l
ds
Reorganiz
e
Tools tests (needs s
o
me more spli
t
t
ing)
commit
|
commitdiff
|
tree
2008-12-03
c
j
fields
Remove
(te
s
ts a
r
e redund
a
nt, in C
o
nsed
.
t)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge tests and remo
v
e redundant fi
l
e
commit
|
commitdiff
|
tree
2008-12-03
c
j
f
ields
U
p
date
test count
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merge tests
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
Remove redundant fi
l
e
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remov
e
old fil
e
s
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
ld
s
Start
Tools
m
ove
commit
|
commitdiff
|
tree
2008-12-03
cjfields
s
m
all updates:
commit
|
commitdiff
|
tree
2008-12-03
c
jfields
forgo
t
t
o
in
c
rement
t
e
s
t count
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Add a coup
l
e of
tests for seq_id (small but sign
i
f
i
cant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug
2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfi
e
lds
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjf
i
el
d
s
[b
u
g 24
5
0
]
commit
|
commitdiff
|
tree
2008-12-02
cj
f
i
e
lds
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
som
e
pod
u
pdates
commit
|
commitdiff
|
tree
2008-12-02
c
j
fi
e
lds
[bu
g
2
4
50]
commit
|
commitdiff
|
tree
2008-12-02
cjf
i
elds
f
i
x errone
o
usl
y
r
ena
m
ed stockholm t
e
sts
commit
|
commitdiff
|
tree
2008-12-02
cjfields
small
pod
f
ix
commit
|
commitdiff
|
tree
2008-11-30
cjfields
silence GuessSeqFormat
.
t warnings (not sure if o
l
d
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
cjfields
rearr
a
nge to avo
i
d unnecessary warn
i
ngs
commit
|
commitdiff
|
tree
2008-11-28
c
j
f
i
elds
A
dd warnin
g
f
o
r missin
g
data (rea
l
bug)
commit
|
commitdiff
|
tree
2008-11-28
cjfi
e
lds
hash
ref
,
not a ha
s
h
commit
|
commitdiff
|
tree
2008-11-28
cjfi
e
l
ds
test fi
l
e
n
a
me
and test # correction
commit
|
commitdiff
|
tree
2008-11-28
cjfields
correc
t
test file name
commit
|
commitdiff
|
tree
2008-11-28
cjfie
l
ds
'::', not ':'
commit
|
commitdiff
|
tree
2008-11-28
c
j
f
i
elds
re
n
ame (r
e
curs
i
ve tests
think this is a test
f
i
l
e)
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
elds
recur
s
e in
t
o
test
subdirectories (means any non-te
s
t
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
c
j
fields
remove re
d
undant copy
commit
|
commitdiff
|
tree
2008-11-28
cjfields
move into directory structure
commit
|
commitdiff
|
tree
2008-11-28
cjfields
move int
o
directory struc
t
ure (DaveM
+
+)
commit
|
commitdiff
|
tree
2008-11-26
cjfields
[bug 2567]
commit
|
commitdiff
|
tree
2008-11-26
c
j
fiel
d
s
R
e
dundant; file was renamed
SearchIO_blast_pull
.
t
.
commit
|
commitdiff
|
tree
2008-11-26
cjf
i
elds
[bug 2686]
commit
|
commitdiff
|
tree
2008-11-26
cjfields
f
ix subversion tags
commit
|
commitdiff
|
tree
2008-11-25
cjfie
l
ds
p
o,
not poa
commit
|
commitdiff
|
tree
2008-11-25
cjfields
fi
x
u
ndef
i
ned val
u
e warnings
commit
|
commitdiff
|
tree
2008-11-25
cjfields
[
bug
2
686]
commit
|
commitdiff
|
tree
2008-11-25
c
j
fields
[b
u
g
2
6
41,
2
642
]
commit
|
commitdiff
|
tree
2008-11-25
cjfiel
d
s
split up A
l
ig
n
IO tests
commit
|
commitdiff
|
tree
2008-11-25
cjfields
[bug 2682]
commit
|
commitdiff
|
tree
2008-11-25
c
jfields
[bug 2630]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bug 263
3
]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[
b
ug
2663]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bu
g
2
663]
commit
|
commitdiff
|
tree
2008-11-24
c
j
fields
[bug 2
6
30]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bu
g
2
262]
commit
|
commitdiff
|
tree
2008-11-24
cjfie
l
ds
[
bug 2630]
commit
|
commitdiff
|
tree
2008-11-18
cjfields
* Double-ch
e
cked dat
a
, test
e
d
results w
e
re wr
o
ng
commit
|
commitdiff
|
tree
2008-11-18
cjfi
e
l
d
s
* s
e
q_inds is not
d
efined for Mo
d
el-base
d
HSPs
commit
|
commitdiff
|
tree
2008-11-18
cjfields
* fix POD
commit
|
commitdiff
|
tree
2008-11-17
cjfields
* 'highl
y
' (and I get r15000!)
commit
|
commitdiff
|
tree
2008-11-17
cjfields
Remove re
d
und
a
nt test fil
e
s
commit
|
commitdiff
|
tree
2008-11-17
cj
f
ields
[tests]
commit
|
commitdiff
|
tree
2008-11-17
c
jfields
move
r
es
u
lts2h
a
sh test uti
l
ity sub t
o
SearchUtils
commit
|
commitdiff
|
tree
2008-11-16
c
j
fields
[b
u
g 266
3
]
commit
|
commitdiff
|
tree
2008-11-16
cjfields
perltid
y
commit
|
commitdiff
|
tree
2008-11-16
cjf
i
elds
[bug 2635]
commit
|
commitdiff
|
tree
2008-11-14
c
j
fields
[bug 265
6
]
commit
|
commitdiff
|
tree
2008-11-11
cjfields
r
emo
v
e
d
ebugging lines
commit
|
commitdiff
|
tree
2008-11-11
cjfields
rem
o
ve fixed verbose flag
commit
|
commitdiff
|
tree
2008-11-11
cjfields
[bug 2
6
50]
commit
|
commitdiff
|
tree
2008-11-11
c
jf
i
elds
Cla
r
ify result_co
u
nt (discussions o
n
mail l
i
s
t per
.
.
.
commit
|
commitdiff
|
tree
2008-11-11
c
jfields
[bug 2632]
commit
|
commitdiff
|
tree
2008-11-10
cjfields
[bug 2645]
commit
|
commitdiff
|
tree
2008-11-04
c
j
fields
w
r
a
p
text
commit
|
commitdiff
|
tree
2008-11-04
cjfields
* parse 'Features in this part of subject
sequence
.
.
.
commit
|
commitdiff
|
tree
2008-11-04
c
j
field
s
*
parse 'Features i
n
t
h
is part of sub
j
ect sequenc
e
.
.
.
commit
|
commitdiff
|
tree
2008-10-30
cj
f
ields
[bug 2
6
32]
commit
|
commitdiff
|
tree
2008-10-29
c
jfields
fix seq_inds(); wasn't calli
n
g identic
a
l residue
s
for
.
.
.
commit
|
commitdiff
|
tree
2008-10-29
cjfield
s
[bug 26
3
3
]
commit
|
commitdiff
|
tree
2008-10-28
c
j
fi
e
lds
[bug
2
630]
commit
|
commitdiff
|
tree
2008-10-26
cjfield
s
Fix unlink() warning
commit
|
commitdiff
|
tree
2008-10-26
cjfield
s
e
nd = start if o
n
ly start is p
a
ssed
commit
|
commitdiff
|
tree
2008-10-26
cj
f
ie
l
d
s
use valid_Locatio
n
to chec
k
Loc
a
t
i
on
s
tate
commit
|
commitdiff
|
tree
2008-10-26
cjfields
add docs for
L
ocationI m
e
t
h
od valid_Location
commit
|
commitdiff
|
tree
2008-10-26
c
j
fields
[
b
ug 2621]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[bug 2
6
21]
commit
|
commitdiff
|
tree
2008-10-26
cjfie
l
ds
[bug 2624]
commit
|
commitdiff
|
tree
2008-10-26
c
j
fields
[bug 2621]
commit
|
commitdiff
|
tree
2008-10-25
cjfiel
d
s
bu
l
l
e
t-pr
o
o
f
p
r
o
t
otype
test
commit
|
commitdiff
|
tree
2008-10-22
cjfields
fix f
i
le p
r
operties
commit
|
commitdiff
|
tree
next