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Merge pull request #15 from tupinek/master
2011-06-02
Chris Fie
l
ds
M
e
rg
e
pull reques
t
#15 f
r
om tupinek/master
commit
|
commitdiff
|
tree
2011-05-10
Chris Fields
f
i
x spe
l
l
i
n
g
errors, fixe
s
#3228
commit
|
commitdiff
|
tree
2011-04-13
Ch
r
is Fields
fi
x
skip test cou
n
t
(off
by 1)
commit
|
commitdiff
|
tree
2011-04-13
Chris Fie
l
ds
Me
r
ge br
a
n
ch '
t
opic/bu
g
_3196'
,
fixes #3196
b
ut ne
e
ds
.
.
.
commit
|
commitdiff
|
tree
2011-04-13
Chris Fields
Mer
g
e remote b
r
an
c
h 'wk
r
etzsch/mast
e
r'
commit
|
commitdiff
|
tree
2011-02-14
Chris F
i
e
lds
M
e
rge
b
ra
n
ch '
m
aster' of github
.
com:bioperl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-11-09
Chris Fields
Merge b
r
anch 't
o
p
ic/gj
u
ggler_tree_
f
i
x
e
s'
commit
|
commitdiff
|
tree
2010-11-08
Chris Fields
Merge br
a
n
c
h 'mast
e
r
'
of https
:
//gi
t
h
u
b
.
c
o
m/gjugg
l
er
.
.
.
commit
|
commitdiff
|
tree
2010-08-17
Chris Fields
Merge branc
h
'circular'
commit
|
commitdiff
|
tree
2010-07-23
Chris Fields
[RT 58464] patchi
n
g t
o
allow file name
s
wit
h
sp
a
ces
commit
|
commitdiff
|
tree
2010-07-23
C
hr
i
s Fie
l
ds
Me
r
ge branch
'topic/
c
jfields_interpro_get_
d
bxref
'
commit
|
commitdiff
|
tree
2010-07-03
C
h
ris Fields
Merge bra
n
c
h
'top
i
c/spec
i
es_pro
x
y'
commit
|
commitdiff
|
tree
2010-06-29
Chris Fiel
d
s
Merge branch 'master'
into topic/sp
e
c
i
es_pr
o
xy
commit
|
commitdiff
|
tree
2010-06-22
Chr
i
s Fields
fix conflict
commit
|
commitdiff
|
tree
2010-06-10
C
h
r
i
s Fields
Ben
'
s changes
t
o
f
ix bug
w
ith fil
e
, along with comm
e
nt
.
.
.
commit
|
commitdiff
|
tree
2010-06-07
C
hris
Fields
M
e
rge branch
'
topic/bug308
9
'
commit
|
commitdiff
|
tree
2010-06-06
Chr
i
s F
i
e
lds
Merge Br
i
an's branch
commit
|
commitdiff
|
tree
2010-06-04
Ch
r
is Fields
Mer
g
e
branch 'mas
t
er' of git
h
u
b
.
com:bioperl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-25
Chris Fields
Merge
branch
'master' o
f
github
.
com
:
biope
r
l/bioper
l
.
.
.
commit
|
commitdiff
|
tree
2010-05-20
C
h
r
is Fields
c
a
n't lookup an und
e
fined
v
alue as
an
e
x
ecutab
l
e
commit
|
commitdiff
|
tree
2010-05-20
Chris Fields
Merge
b
ranch 'master' of github
.
com:bioperl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-20
Chris Fiel
d
s
Mer
g
e branch 'ma
s
ter' of github
.
com:bioperl/bioperl
.
.
.
commit
|
commitdiff
|
tree
2010-05-17
Chris Fields
Merge
b
ranch 'maste
r
' of git@gi
t
hub
.
c
om:biop
e
rl/bi
o
perl
.
.
.
commit
|
commitdiff
|
tree
2010-05-10
cjfields
make test less prone
t
o v
o
la
t
ile chang
e
s
commit
|
commitdiff
|
tree
2010-03-06
c
j
fields
fix remotebla
s
t parsing
(
a
l
mos
t
complete
r
efact
o
r of
.
.
.
commit
|
commitdiff
|
tree
2010-03-05
cjfields
next, not redo
commit
|
commitdiff
|
tree
2010-03-04
cj
f
i
elds
Add a finite number of
att
e
mpts
f
or report retri
e
v
a
l
commit
|
commitdiff
|
tree
2010-03-04
cjfield
s
remot
e
BLAST is ti
m
ing o
u
t
when
using C
D
D and rp
s
bla
s
t
commit
|
commitdiff
|
tree
2009-11-25
cjfields
add
n
parameter (not tested) cou
r
tesy Nevo Ban
d
(not
.
.
.
commit
|
commitdiff
|
tree
2009-09-16
cjfields
[cage cleaning]
commit
|
commitdiff
|
tree
2009-07-03
c
j
fields
catch edge cases where we unintentionally pass an undef
.
.
.
commit
|
commitdiff
|
tree
2009-05-04
cjfields
mi
n
or fo
r
matting fix
commit
|
commitdiff
|
tree
2009-02-23
cjfi
e
lds
first pass at a Komodo
BioPerl template file
commit
|
commitdiff
|
tree
2009-01-15
cjfields
Don't q
u
o
tem
e
ta if using
W
indows
commit
|
commitdiff
|
tree
2008-12-20
cjfi
e
lds
remove BPlite tests
compl
e
t
e
ly
commit
|
commitdiff
|
tree
2008-12-20
cjfields
Remov
e
BPlite from use
commit
|
commitdiff
|
tree
2008-12-11
cjfields
[
bug
2707]
commit
|
commitdiff
|
tree
2008-12-03
cj
f
ields
Reor
g
ani
z
e To
o
ls tests (needs so
m
e m
o
re spli
t
ting)
commit
|
commitdiff
|
tree
2008-11-28
cj
f
ie
l
ds
move into direct
o
r
y structure
commit
|
commitdiff
|
tree
2008-11-25
cj
f
ie
l
ds
p
o
, not
p
oa
commit
|
commitdiff
|
tree
2008-11-25
cjfie
l
ds
sp
l
it up Align
I
O tests
commit
|
commitdiff
|
tree
2008-11-17
c
j
fiel
d
s
[tes
t
s]
commit
|
commitdiff
|
tree
2008-02-11
cjfields
re
m
ove comm
e
nt (make sure tempfile/tempdi
r
s
stored
.
.
.
commit
|
commitdiff
|
tree
2008-02-11
cjfields
Fix
f
o
r bug 2413
.
Shouldn't we dele
g
ate all IO-related
.
.
.
commit
|
commitdiff
|
tree
2007-10-23
cjfield
s
bug 2367
commit
|
commitdiff
|
tree
2007-07-06
cjfi
e
lds
Must allow
other Se
a
rchIO readmethods (an
y
thing t
h
at
.
.
.
commit
|
commitdiff
|
tree
2007-01-19
cj
f
iel
d
s
change File::P
a
th verbosi
t
y to only be TRUE
w
hen debu
g
ging
commit
|
commitdiff
|
tree
2007-01-18
cjfields
remove comments; cl
e
anu
p
() sho
u
ld now work (fingers
.
.
.
commit
|
commitdiff
|
tree
2007-01-18
cjfiel
d
s
revert back to n
o
rmal from debugging
commit
|
commitdiff
|
tree
2007-01-18
cjf
i
elds
B
u
g 2183
commit
|
commitdiff
|
tree