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Merge pull request #15 from tupinek/master
2011-06-02
Chris Fields
M
erg
e
p
ull req
u
est #15 f
r
om tu
p
i
nek
/
mast
e
r
commit
|
commitdiff
|
tree
2011-05-10
Chri
s
Fi
e
lds
fix spel
l
in
g
e
rrors, fixes #
3
228
commit
|
commitdiff
|
tree
2011-04-13
Chris Fields
f
i
x s
k
ip t
e
st count (off by 1
)
commit
|
commitdiff
|
tree
2011-04-13
Chris Fields
M
erge branch
'topic/bug_3196
'
,
f
ixe
s
#31
9
6 but needs
.
.
.
commit
|
commitdiff
|
tree
2011-04-13
Chri
s
Fields
M
er
g
e
r
emo
t
e bra
n
ch '
w
kretzsch/master'
commit
|
commitdiff
|
tree
2011-02-14
Chris Fields
Merg
e
branch 'mast
e
r
'
of github
.
com:b
i
operl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-11-09
C
h
ris Fields
Me
r
ge branc
h
'topic/gjugg
l
er_tree_fi
x
e
s'
commit
|
commitdiff
|
tree
2010-11-08
Chris F
i
elds
Merge branch 'm
a
s
t
er' of ht
t
ps://github
.
com/g
j
uggl
e
r
.
.
.
commit
|
commitdiff
|
tree
2010-08-17
Chris Fields
Merge
b
ranch 'circ
u
lar'
commit
|
commitdiff
|
tree
2010-07-23
Chris Fields
[RT 58464] patching
to al
l
ow
fil
e
names with spaces
commit
|
commitdiff
|
tree
2010-07-23
Chris Fiel
d
s
Merge branch 'topic/c
j
f
ields
_
in
t
erpro_
g
e
t
_dbxref'
Merge branch 'topic/
cjfields
_interpro_get_dbxref'
commit
|
commitdiff
|
tree
2010-07-03
Ch
r
is F
i
el
d
s
M
e
rge branch
'
topic/sp
e
ci
e
s_pr
o
xy'
commit
|
commitdiff
|
tree
2010-06-29
Chris F
i
elds
Me
r
ge branch 'master'
into topic
/
s
pecies_prox
y
commit
|
commitdiff
|
tree
2010-06-22
Chris
F
ields
fix conflic
t
commit
|
commitdiff
|
tree
2010-06-10
C
hris
F
iel
d
s
Be
n
's
c
hanges to fix b
u
g with file, a
l
ong with
c
omm
e
nt
.
.
.
commit
|
commitdiff
|
tree
2010-06-07
C
hris Fields
Merge branch 't
o
pic/bug3089'
commit
|
commitdiff
|
tree
2010-06-06
Chris Fields
Merge Brian
'
s
branch
commit
|
commitdiff
|
tree
2010-06-04
Chris
Field
s
Merge bra
n
ch 'mast
e
r'
of
git
h
ub
.
com:b
i
o
p
erl/
b
ioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-25
C
hris Fi
e
l
d
s
M
e
rge br
a
nch 'master' of g
i
thub
.
c
om:bioperl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-20
Chris
F
i
elds
can
'
t
l
ook
u
p a
n
u
ndefi
n
ed value
a
s
an executabl
e
commit
|
commitdiff
|
tree
2010-05-20
Chris Fields
Merge branch
'
maste
r
' of githu
b
.
com:b
i
operl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-20
C
h
ris Fields
Merge br
a
nc
h
'
m
aster' of github
.
com
:
bi
o
perl/bioper
l
.
.
.
commit
|
commitdiff
|
tree
2010-05-17
Chris Fi
e
lds
Merge br
a
nch 'ma
s
ter' of g
i
t
@g
i
th
u
b
.
com:bioperl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-10
cjfield
s
make t
e
st les
s
pr
o
n
e to volatile
changes
commit
|
commitdiff
|
tree
2010-03-06
cj
f
i
e
lds
fix
r
emote
b
la
s
t parsing (almost c
o
mplet
e
refactor of
.
.
.
commit
|
commitdiff
|
tree
2010-03-05
cjfie
l
ds
nex
t
, not redo
commit
|
commitdiff
|
tree
2010-03-04
c
jfi
e
lds
Add a finite
number of at
t
empts fo
r
r
eport retri
e
va
l
commit
|
commitdiff
|
tree
2010-03-04
c
j
field
s
remote
BLA
S
T is t
i
m
i
ng ou
t
when using CDD an
d
rpsblas
t
commit
|
commitdiff
|
tree
2009-11-25
cjfie
l
ds
add n par
a
me
t
er (not tested) cou
r
tesy Nevo Band
(
not
.
.
.
commit
|
commitdiff
|
tree
2009-09-16
cjfields
[cage cleaning]
commit
|
commitdiff
|
tree
2009-07-03
cjfields
c
atch
e
dge
c
ases where we unintenti
o
nally pass an undef
.
.
.
commit
|
commitdiff
|
tree
2009-05-04
cjfields
minor formatting fix
commit
|
commitdiff
|
tree
2009-02-23
c
j
fi
e
lds
first pas
s
at a Ko
m
odo BioPerl templat
e
file
commit
|
commitdiff
|
tree
2009-01-15
cjfields
Don'
t
quo
t
emeta if
using
W
i
ndows
commit
|
commitdiff
|
tree
2008-12-20
cjfield
s
remove BPlite tests co
m
ple
t
e
ly
commit
|
commitdiff
|
tree
2008-12-20
cj
f
ields
Remove BPlite from
u
se
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[bug 2707]
commit
|
commitdiff
|
tree
2008-12-03
cjfiel
d
s
Reorganize Too
l
s
t
est
s
(needs
s
ome more splitting)
commit
|
commitdiff
|
tree
2008-11-28
cjfields
m
o
ve in
t
o direct
o
ry struc
t
ure
commit
|
commitdiff
|
tree
2008-11-25
cjfiel
d
s
po, not poa
commit
|
commitdiff
|
tree
2008-11-25
cj
f
ields
s
pli
t
u
p
AlignIO te
s
t
s
commit
|
commitdiff
|
tree
2008-11-17
cjfields
[tests]
commit
|
commitdiff
|
tree
2008-02-11
cjfields
remove c
o
m
men
t
(make sur
e
tempfile/tempdirs stored
.
.
.
commit
|
commitdiff
|
tree
2008-02-11
cj
f
ields
Fix for bug 2413
.
Sho
u
l
dn't we
de
l
egate all IO-re
l
ated
.
.
.
commit
|
commitdiff
|
tree
2007-10-23
cjfields
bug 2367
commit
|
commitdiff
|
tree
2007-07-06
c
jfie
l
ds
Must allow
other
S
e
arch
I
O
re
a
d
meth
o
ds (
a
nything th
a
t
.
.
.
commit
|
commitdiff
|
tree
2007-01-19
cjfields
chang
e
Fi
l
e:
:
Path verbosi
t
y to only be TRUE when
debugging
commit
|
commitdiff
|
tree
2007-01-18
c
j
f
ields
remo
v
e comme
n
ts; c
l
eanup() sho
u
ld
now work (f
i
ngers
.
.
.
commit
|
commitdiff
|
tree
2007-01-18
c
jfields
revert back to n
o
rmal f
r
o
m
debug
g
ing
commit
|
commitdiff
|
tree
2007-01-18
cjfields
Bug 2183
commit
|
commitdiff
|
tree