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diag() only on verbose
2008-12-09
cjfields
diag() only on v
e
r
bos
e
commit
|
commitdiff
|
tree
2008-12-09
cjfields
Fix last loop tests, mov
e
some t
o
can_ok
commit
|
commitdiff
|
tree
2008-12-09
cjfiel
d
s
Modify to
te
s
t new te
m
p
clas
s
e
s and ens
u
re
t
hat added
.
.
.
commit
|
commitdiff
|
tree
2008-12-09
c
j
f
i
e
l
d
s
update Mauricio's e
m
ail
commit
|
commitdiff
|
tree
2008-12-08
cjfie
l
ds
U
pdate Roy's
email
commit
|
commitdiff
|
tree
2008-12-08
cjfi
e
lds
Roy's
ema
i
l (and bioperl
.
org
no
t
b
i
operl
.
edu)
commit
|
commitdiff
|
tree
2008-12-08
cjf
i
elds
Updat
e
d em
a
il
s
commit
|
commitdiff
|
tree
2008-12-07
cjfield
s
[bug 2
6
99]
commit
|
commitdiff
|
tree
2008-12-05
c
j
f
i
e
lds
N
e
e
d
to retrieve t
h
e tree for output
commit
|
commitdiff
|
tree
2008-12-05
cjf
i
elds
[bug
2
450
]
commit
|
commitdiff
|
tree
2008-12-04
cjfields
Make Target a tr
u
e
DBLi
n
k
commit
|
commitdiff
|
tree
2008-12-04
cjfields
Direct
o
ry is no longer needed (Heikki split this up
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
cjfield
s
add
f
orce_nse
t
ests
commit
|
commitdiff
|
tree
2008-12-03
cjfields
leave ID unde
f
ine
d
if
it isn
'
t present, but allow the
.
.
.
commit
|
commitdiff
|
tree
2008-12-03
c
j
fi
e
l
ds
Remove files accide
n
tly added
f
rom l
a
s
t commit
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Reorganiz
e
Tools
t
e
sts
(
n
e
eds som
e
m
o
re splitting)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove
(
tests are redundant,
i
n Consed
.
t
)
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Merg
e
t
ests and remo
v
e
r
edu
n
dant file
commit
|
commitdiff
|
tree
2008-12-03
cjfie
l
ds
Update test c
o
un
t
commit
|
commitdiff
|
tree
2008-12-03
cjfi
e
lds
M
e
r
ge t
e
sts
commit
|
commitdiff
|
tree
2008-12-03
cjfields
Remove redu
n
dant f
i
le
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
Remove old f
i
les
commit
|
commitdiff
|
tree
2008-12-03
cjfie
l
ds
Start Tools mo
v
e
commit
|
commitdiff
|
tree
2008-12-03
cjfields
small
u
p
d
ates:
commit
|
commitdiff
|
tree
2008-12-03
cjf
i
e
lds
fo
r
got to
i
ncre
m
ent test
c
o
u
n
t
commit
|
commitdiff
|
tree
2008-12-03
cjfie
l
ds
Add a
couple of
t
e
s
ts for seq_id
(small but significant
.
.
.
commit
|
commitdiff
|
tree
2008-12-02
cjfield
s
[bug
2
450]
commit
|
commitdiff
|
tree
2008-12-02
c
jfield
s
[
bug 24
5
0]
commit
|
commitdiff
|
tree
2008-12-02
cjfiel
d
s
[bug 2450
]
commit
|
commitdiff
|
tree
2008-12-02
cj
f
ields
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjf
i
eld
s
some po
d
u
pd
a
tes
commit
|
commitdiff
|
tree
2008-12-02
cjfields
[bug 2450]
commit
|
commitdiff
|
tree
2008-12-02
cjfields
f
i
x erroneou
s
ly
renamed
s
tockh
o
lm
tests
commit
|
commitdiff
|
tree
2008-12-02
cjfields
small
p
o
d
f
ix
commit
|
commitdiff
|
tree
2008-11-30
cj
f
ie
l
ds
silence Gues
s
Se
q
Fo
r
mat
.
t warnings (not sure if old
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
cjf
i
elds
rearran
g
e to avoid unnecessary warnings
commit
|
commitdiff
|
tree
2008-11-28
cj
f
ields
Add
w
a
r
n
i
ng for missing d
a
ta (real bug)
commit
|
commitdiff
|
tree
2008-11-28
c
jfields
hash
ref, not a h
a
sh
commit
|
commitdiff
|
tree
2008-11-28
cj
f
i
elds
test f
i
l
e
name and
t
est
#
c
o
rrecti
o
n
commit
|
commitdiff
|
tree
2008-11-28
c
j
fiel
d
s
c
orrec
t
test file n
a
me
commit
|
commitdiff
|
tree
2008-11-28
cjfields
'::', not '
:
'
commit
|
commitdiff
|
tree
2008-11-28
cj
f
ields
rename (recurs
i
ve tests th
i
nk t
h
is is a test file
)
commit
|
commitdiff
|
tree
2008-11-28
cjfields
r
ecurse int
o
test su
b
directories
(
m
e
ans any non-test
.
.
.
commit
|
commitdiff
|
tree
2008-11-28
cj
f
ields
remove r
e
dundan
t
co
p
y
commit
|
commitdiff
|
tree
2008-11-28
cjfie
l
d
s
mo
v
e into dir
e
c
t
ory structure
commit
|
commitdiff
|
tree
2008-11-28
cj
f
ields
move i
n
to directory structur
e
(
D
a
v
e
M++)
commit
|
commitdiff
|
tree
2008-11-26
cjfields
[bug 2567]
commit
|
commitdiff
|
tree
2008-11-26
cjfi
e
lds
R
e
dundant;
f
ile was renamed SearchIO_
b
l
ast_pull
.
t
.
commit
|
commitdiff
|
tree
2008-11-26
cjf
i
elds
[bug 2686]
commit
|
commitdiff
|
tree
2008-11-26
c
j
fi
e
lds
fix subvers
i
on tags
commit
|
commitdiff
|
tree
2008-11-25
cjfields
po,
not poa
commit
|
commitdiff
|
tree
2008-11-25
cjfields
fix undefin
e
d
value warn
i
n
g
s
commit
|
commitdiff
|
tree
2008-11-25
cjfields
[bug 2686
]
commit
|
commitdiff
|
tree
2008-11-25
cjfiel
d
s
[bug 2641,
264
2
]
commit
|
commitdiff
|
tree
2008-11-25
cjfie
l
d
s
split up AlignIO te
s
ts
commit
|
commitdiff
|
tree
2008-11-25
cjf
i
elds
[
b
ug 268
2
]
commit
|
commitdiff
|
tree
2008-11-25
cjfields
[bug 2630]
commit
|
commitdiff
|
tree
2008-11-24
cjf
i
elds
[bug 2
6
33]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[b
u
g 2663]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[bug 2663]
commit
|
commitdiff
|
tree
2008-11-24
cjfiel
d
s
[
b
ug 263
0
]
commit
|
commitdiff
|
tree
2008-11-24
cjfiel
d
s
[
bug 2262]
commit
|
commitdiff
|
tree
2008-11-24
cjfields
[
bug
2
6
30]
commit
|
commitdiff
|
tree
2008-11-18
cjfields
* Double-checked data
,
t
e
sted resu
l
ts
w
ere w
r
ong
commit
|
commitdiff
|
tree
2008-11-18
cjfi
e
lds
*
se
q
_
i
n
ds is not defi
n
ed
for
M
o
del-ba
s
e
d
HSPs
commit
|
commitdiff
|
tree
2008-11-18
cj
f
ields
* fix POD
commit
|
commitdiff
|
tree
2008-11-17
cjfields
* 'h
i
g
hly' (and I get r150
0
0!)
commit
|
commitdiff
|
tree
2008-11-17
cjfiel
d
s
Rem
o
ve redundan
t
te
s
t files
commit
|
commitdiff
|
tree
2008-11-17
cjf
i
elds
[tes
t
s]
commit
|
commitdiff
|
tree
2008-11-17
c
j
fields
move
results2hash test
utili
t
y sub
to Sear
c
hUt
i
ls
commit
|
commitdiff
|
tree
2008-11-16
cjf
i
elds
[bug 26
6
3]
commit
|
commitdiff
|
tree
2008-11-16
c
j
fields
p
e
r
ltid
y
commit
|
commitdiff
|
tree
2008-11-16
cjfie
l
ds
[bu
g
2635
]
commit
|
commitdiff
|
tree
2008-11-14
cjfields
[bug 2656]
commit
|
commitdiff
|
tree
2008-11-11
cjfields
r
emove debug
g
ing lines
commit
|
commitdiff
|
tree
2008-11-11
cjfields
r
e
move fixed verbose flag
commit
|
commitdiff
|
tree
2008-11-11
cjfields
[bug 2650]
commit
|
commitdiff
|
tree
2008-11-11
cjfields
Clarify
r
esult_count (disc
u
ssi
o
ns on ma
i
l list p
e
r
.
.
.
commit
|
commitdiff
|
tree
2008-11-11
cjfields
[
b
u
g 2632]
commit
|
commitdiff
|
tree
2008-11-10
cjfi
e
lds
[b
u
g
2
6
45]
commit
|
commitdiff
|
tree
2008-11-04
c
jfi
e
lds
wrap
t
ex
t
commit
|
commitdiff
|
tree
2008-11-04
cjfields
* parse 'F
e
atures in this part of su
b
ject
s
eque
n
ce
.
.
.
commit
|
commitdiff
|
tree
2008-11-04
cjfields
* parse 'Features in
t
his part of subje
c
t seque
n
ce
.
.
.
commit
|
commitdiff
|
tree
2008-10-30
cjfi
e
lds
[bug 2632]
commit
|
commitdiff
|
tree
2008-10-29
cjfie
l
ds
fix seq_ind
s
(); wasn't ca
l
l
i
ng ident
i
cal
r
esi
d
ues for
.
.
.
commit
|
commitdiff
|
tree
2008-10-29
cjfie
l
ds
[bug 2633]
commit
|
commitdiff
|
tree
2008-10-28
c
j
f
ields
[b
u
g
2
630]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
Fix un
l
ink()
warning
commit
|
commitdiff
|
tree
2008-10-26
c
j
f
ields
end = st
a
rt if onl
y
start
is pas
s
e
d
commit
|
commitdiff
|
tree
2008-10-26
cj
f
i
elds
use valid_
L
ocation to check Location state
commit
|
commitdiff
|
tree
2008-10-26
c
jfields
add docs for Locati
o
nI meth
o
d
valid_Location
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[bu
g
2621]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[bug
2621]
commit
|
commitdiff
|
tree
2008-10-26
c
j
f
i
elds
[
bug 2
6
24]
commit
|
commitdiff
|
tree
2008-10-26
cjfields
[
b
ug 262
1
]
commit
|
commitdiff
|
tree
2008-10-25
cjfields
bullet-proof prototype tes
t
commit
|
commitdiff
|
tree
2008-10-22
cjf
i
elds
fix file propertie
s
commit
|
commitdiff
|
tree
2008-10-22
cjfields
new modu
l
e for p
a
rs
i
ng ve
c
s
c
reen -f 3 o
u
tput, courtesy
.
.
.
commit
|
commitdiff
|
tree
2008-10-15
cjfields
add
-sour
c
e f
o
r A
R
P
commit
|
commitdiff
|
tree
2008-10-15
cjfi
e
lds
[
bu
g
256
3
]
commit
|
commitdiff
|
tree
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