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Remove redundant file
2008-12-03
cjfields
Re
m
ove re
d
undant file
commit
|
commitdiff
|
tree
2008-12-03
cjfields
R
emov
e
old files
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Start Tools mo
v
e
commit
|
commitdiff
|
tree
2008-12-03
cjfiel
d
s
small updat
e
s:
commit
|
commitdiff
|
tree
2008-12-03
c
j
field
s
fo
r
got to incremen
t
test count
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Add a cou
p
l
e
of
te
s
t
s
fo
r
se
q
_id (small but significant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfi
e
lds
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
c
jfi
e
lds
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[
bug
2
45
0
]
commit
|
commitdiff
|
tree
2008-12-02
cjfie
l
ds
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
some pod updates
commit
|
commitdiff
|
tree
2008-12-02
cjfie
l
d
s
[bug 245
0
]
commit
|
commitdiff
|
tree
2008-12-02
c
j
fields
f
i
x erroneously ren
a
med stockholm tests
commit
|
commitdiff
|
tree
2008-12-02
cjfields
s
mall pod fix
commit
|
commitdiff
|
tree
2008-11-30
cjfields
silen
c
e G
u
essSeqFormat
.
t warnings (n
o
t sur
e
if old
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
c
jfield
s
re
a
rr
a
nge
to a
v
oid unnecessary w
a
rnings
commit
|
commitdiff
|
tree
2008-11-28
cjfields
Add warn
i
ng f
o
r missing dat
a
(real b
u
g)
commit
|
commitdiff
|
tree
2008-11-28
cjfields
hash
r
ef, n
o
t a
hash
commit
|
commitdiff
|
tree
2008-11-28
cjfields
test
f
ile name
a
nd test # corre
c
tion
commit
|
commitdiff
|
tree
2008-11-28
c
j
fi
e
l
d
s
correct test fi
l
e name
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
elds
'::',
not
'
:
'
commit
|
commitdiff
|
tree
2008-11-28
c
jfields
rename (recur
s
ive tests
t
hink this is
a test
fi
l
e)
commit
|
commitdiff
|
tree
2008-11-28
c
j
fields
recu
r
se into
t
e
st su
b
directorie
s
(
m
eans any non-test
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
cjfields
r
emove re
d
undant cop
y
commit
|
commitdiff
|
tree
2008-11-28
cjfields
move into directory
s
t
r
uctur
e
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
elds
mo
v
e
into directo
r
y st
r
u
c
t
u
re (Dave
M
++)
commit
|
commitdiff
|
tree
2008-11-26
cjfields
[
b
ug 2567]
commit
|
commitdiff
|
tree
2008-11-26
cjfields
R
edundant;
f
ile was rename
d
SearchIO_blast_pull
.
t
.
commit
|
commitdiff
|
tree
2008-11-26
cj
f
i
e
lds
[
b
ug
2
686
]
commit
|
commitdiff
|
tree
2008-11-26
cjfields
f
i
x
s
ubversion tags
commit
|
commitdiff
|
tree
2008-11-25
cjfields
p
o
, n
o
t po
a
commit
|
commitdiff
|
tree
2008-11-25
cjfields
fix u
n
defi
n
ed value warnings
commit
|
commitdiff
|
tree
2008-11-25
cj
f
ields
[bug 2686]
commit
|
commitdiff
|
tree
2008-11-25
cjfields
[bug 2641, 2
6
42]
commit
|
commitdiff
|
tree
2008-11-25
cjfields
split up AlignIO tests
commit
|
commitdiff
|
tree
2008-11-25
cjfields
[b
u
g 2682]
commit
|
commitdiff
|
tree
2008-11-25
cj
f
i
elds
[bu
g
2630]
commit
|
commitdiff
|
tree
2008-11-24
c
jfields
[bug
2
633
]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[b
u
g
2
663]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bug
2
663]
commit
|
commitdiff
|
tree
2008-11-24
cjfield
s
[bu
g
2
6
30]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bu
g
2
2
62]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bug 2
6
30]
commit
|
commitdiff
|
tree
2008-11-18
cjf
i
elds
* Doubl
e
-check
e
d data,
t
ested results were wrong
commit
|
commitdiff
|
tree
2008-11-18
cjfie
l
d
s
* s
e
q
_
in
d
s is not defined for
M
ode
l
-ba
s
ed
HSPs
commit
|
commitdiff
|
tree
2008-11-18
cjfield
s
* f
i
x POD
commit
|
commitdiff
|
tree
2008-11-17
cjfields
*
'
highly' (and I
g
et r15
0
0
0
!)
commit
|
commitdiff
|
tree
2008-11-17
cjfields
Re
m
ove
redundant te
s
t files
commit
|
commitdiff
|
tree
2008-11-17
c
j
field
s
[tes
t
s
]
commit
|
commitdiff
|
tree
2008-11-17
c
jfields
move result
s
2ha
s
h
test
u
ti
l
ity
s
ub to
S
ea
r
ch
U
t
i
ls
commit
|
commitdiff
|
tree
2008-11-16
c
jfields
[b
u
g 2663]
commit
|
commitdiff
|
tree
2008-11-16
cjfie
l
ds
p
e
r
ltidy
commit
|
commitdiff
|
tree
2008-11-16
cjfields
[bug 2635]
commit
|
commitdiff
|
tree
2008-11-14
cjfi
e
lds
[bug 2656]
commit
|
commitdiff
|
tree
2008-11-11
cjf
i
elds
remove debu
g
ging l
i
nes
commit
|
commitdiff
|
tree
2008-11-11
cjfields
remove fix
e
d
v
e
rbose flag
commit
|
commitdiff
|
tree
2008-11-11
cjfield
s
[bug 265
0
]
commit
|
commitdiff
|
tree
2008-11-11
cjfields
Cla
r
ify result_co
u
nt (discussi
o
ns on mail list per
.
.
.
commit
|
commitdiff
|
tree
2008-11-11
cjfiel
d
s
[bug 2632]
commit
|
commitdiff
|
tree
2008-11-10
cj
f
ields
[bug 2645]
commit
|
commitdiff
|
tree
2008-11-04
cj
f
ield
s
wrap text
commit
|
commitdiff
|
tree
2008-11-04
cjfie
l
ds
*
parse 'Featur
e
s in
t
hi
s
part of subject sequ
e
n
c
e
.
.
.
commit
|
commitdiff
|
tree
2008-11-04
cj
f
ields
* parse 'Featu
r
es in this part o
f
s
ub
j
ect sequence
.
.
.
commit
|
commitdiff
|
tree
2008-10-30
cjfields
[bug
2
632]
commit
|
commitdiff
|
tree
2008-10-29
cj
f
ields
fix seq_ind
s
(); was
n
't callin
g
ident
i
cal
r
e
sidue
s
f
o
r
.
.
.
commit
|
commitdiff
|
tree
2008-10-29
cjfields
[bug 2633]
commit
|
commitdiff
|
tree
2008-10-28
c
jfields
[bug 2630]
commit
|
commitdiff
|
tree
2008-10-26
cjf
i
elds
Fi
x
unlink()
warn
i
ng
commit
|
commitdiff
|
tree
2008-10-26
cjfields
end
=
start if
only s
t
art is passed
commit
|
commitdiff
|
tree
2008-10-26
cjfields
use valid_Location to check Location state
commit
|
commitdiff
|
tree
2008-10-26
cjfields
add docs for Lo
c
ationI method valid_Location
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[bug 262
1
]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[bug
2621]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[bug
2
6
2
4]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[
b
ug 262
1
]
commit
|
commitdiff
|
tree
2008-10-25
cjfie
l
ds
b
u
lle
t
-proof prototype
test
commit
|
commitdiff
|
tree
2008-10-22
cjfields
fix file properties
commit
|
commitdiff
|
tree
2008-10-22
c
jfields
n
e
w module for parsing vecscreen -f 3 outp
u
t,
c
ourtesy
.
.
.
commit
|
commitdiff
|
tree
2008-10-15
cjf
i
elds
add -source for ARP
commit
|
commitdiff
|
tree
2008-10-15
cjfie
l
ds
[bug 2563]
commit
|
commitdiff
|
tree
2008-10-10
cjf
i
elds
typo
commit
|
commitdiff
|
tree
2008-10-10
cjf
i
elds
[bu
g
2519]
commit
|
commitdiff
|
tree
2008-10-10
cjfields
[
bug 2519]
commit
|
commitdiff
|
tree
2008-10-07
cjfields
a
d
d svn
t
ag
commit
|
commitdiff
|
tree
2008-10-07
cjfields
T
O
DO's
wo
r
k
commit
|
commitdiff
|
tree
2008-10-07
cjfields
[b
u
g
261
2
]
commit
|
commitdiff
|
tree
2008-10-07
cjfields
[bug 26
1
2
]
commit
|
commitdiff
|
tree
2008-10-02
cjfie
l
ds
cle
a
n up XMFA par
s
i
n
g
,
a
l
low
s
pac
e
s in par
s
ing (en
d
e
.
.
.
commit
|
commitdiff
|
tree
2008-09-27
cjfields
[BUG]
b
ug 2598
commit
|
commitdiff
|
tree
2008-09-26
cjfi
e
lds
[BUG]
bugfix for # 25
9
8 (a
d
d
'J')
commit
|
commitdiff
|
tree
2008-09-26
cjfields
[BUG] bug 259
3
commit
|
commitdiff
|
tree
2008-09-26
c
jfi
e
lds
[BUG]
f
ix bu
g
2595
commit
|
commitdiff
|
tree
2008-09-18
cjfields
Use 'wa
r
nin
g
_like' for insta
n
ces where a r
e
gex match
.
.
.
commit
|
commitdiff
|
tree
2008-09-17
cjfiel
d
s
* No l
o
nger
a
stub
commit
|
commitdiff
|
tree
2008-09-17
cjf
i
el
d
s
1965 + 6 -1
=
1970,
n
ot 19
9
9
commit
|
commitdiff
|
tree
2008-09-17
cjfie
l
ds
pas
s
ing TODO's (?!?)
commit
|
commitdiff
|
tree
2008-09-17
cjfields
update tests (seq leng
t
h
c
hange in record ver
i
fied)
commit
|
commitdiff
|
tree
2008-09-17
cjfields
s
et -end to coores
p
on
d
to
s
eque
n
ce end
commit
|
commitdiff
|
tree
2008-09-16
cjfields
test result changed (start always < end)
commit
|
commitdiff
|
tree
2008-09-16
cjfields
F
i
x nexus
issues w
i
th seq
.
ambiguity symbol '
.
'
commit
|
commitdiff
|
tree
next