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more tests for unwanted iteration
2009-09-09
Christopher Lee
more tests for
unwanted iterat
i
o
n
commit
|
commitdiff
|
tree
2009-09-09
Christophe
r
Lee
b
a
s
i
c call
f
o
r block generator
b
ased it
e
r
commit
|
commitdiff
|
tree
2009-09-09
Chr
i
stoph
e
r
Le
e
added
test for unwanted iteration
commit
|
commitdiff
|
tree
2009-09-09
Christopher Lee
first impl
e
mentat
i
on of BlockGene
r
at
o
r
iteration m
e
chanism
commit
|
commitdiff
|
tree
2009-09-09
Christopher Lee
mak
e
itervalues / iter
i
tems use same orderBy ru
l
es
commit
|
commitdiff
|
tree
2009-09-09
Christopher Lee
generalized
i
ter_k
e
ys(
)
, added orderB
y
support
commit
|
commitdiff
|
tree
2009-09-08
C
h
ri
s
toph
e
r
Lee
c
r
ea
t
ed MySQLServerInfo class
that
uses
SSCurs
o
r for
.
.
.
commit
|
commitdiff
|
tree
2009-09-08
Christopher
Lee
a
d
ded use
S
trea
m
ing
o
ption to mysq
l
_co
n
nec
t
()
commit
|
commitdiff
|
tree
2009-09-08
C
hr
i
s
top
h
er
Lee
fixed new_cursor(
)
to p
r
opagate arraysize s
e
tting
p
roperly
commit
|
commitdiff
|
tree
2009-09-05
C
h
ristopher
L
ee
a
d
d
ed
t
e
s
t for b
u
g
84
commit
|
commitdiff
|
tree
2009-09-05
C
h
ristopher Lee
fixed bug 8
4
commit
|
commitdiff
|
tree
2009-09-05
Ch
r
istophe
r
Lee
ad
d
e
d tes
t
for Gra
p
h
V
iew keys / len onl
y
r
e
f
lecting
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
C
hristopher Lee
a
d
d
e
d
invers
e
su
p
port for Gr
a
p
h
Vie
w
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
added
te
s
t for
G
r
aphView inverse and i
m
proved MapView
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
topher Lee
make Gr
a
phView raise KeyError if
k
ey
ha
s
no
r
o
w
s
i
n
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
a
dded test
s
for
M
apV
i
ew iterators and len
commit
|
commitdiff
|
tree
2009-09-05
C
hristopher
Lee
avoi
d
possible iter / keys infinite loop
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
t
o
pher Lee
added
l
ots of t
e
s
ts for
g
raph
s
w
i
th nodes inst
e
ad of
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
c
orrecte
d
the SQL
G
raph it
e
r
a
tor methods an
d
impr
o
v
e
d
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
te
s
t
util
n
e
e
ded new name of get
_
na
m
e_c
u
rsor()
commit
|
commitdiff
|
tree
2009-09-05
Christ
o
p
her Lee
m
a
de get_n
a
me_cursor()
use
D
B
Se
r
ve
r
Info
commit
|
commitdiff
|
tree
2009-09-05
Christop
h
er Lee
added itera
t
ion test to graph
_
test
.
p
y
commit
|
commitdiff
|
tree
2009-09-05
Chris
t
opher Lee
use
n
ew iter_keys
(
) method
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
a
dded better iter
m
eth
o
d
commit
|
commitdiff
|
tree
2009-09-04
C
h
r
istopher Lee
Merge commi
t
'rem
o
te
s
/ctb/xmlrpc_patches
'
commit
|
commitdiff
|
tree
2009-09-04
Christophe
r
Le
e
Merge commit '
r
emot
e
s/mkszuba/fink'
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
removed tes
t
s/oldtests/n
l
msa_dm
2
_megatest
.
p
y
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Merge commit
'
r
emotes/mkszu
b
a/docfixes'
commit
|
commitdiff
|
tree
2009-09-04
Christopher L
e
e
Merge commit 'remo
t
es/mkszuba
/
cleanup'
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
M
e
rge commit '
r
emotes/m
k
s
zuba/bsdd
b
_
b
sddb3'
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
stopher L
e
e
corrected ClassicUnpickler ref
e
re
n
ce
t
o
point to clas
s
util
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
istopher Lee
removed
u
nu
s
ed sh
e
l
ve im
p
ort
commit
|
commitdiff
|
tree
2009-09-04
Chri
s
t
op
h
er Lee
re
m
o
ved
unus
e
d
i
mport
i
tem
commit
|
commitdiff
|
tree
2009-09-04
Christophe
r
Lee
Merge branch
'
tutorial'
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
stopher Lee
a
dded argumen
t
to make MapView i
n
vers
e
able to reconstitute
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
added t
e
s
t o
f
len() method for
S
QLTable
commit
|
commitdiff
|
tree
2009-09-04
C
hris
t
o
pher L
e
e
added db tutorial
(
m
a
ppi
n
g)
b
ack to guidelist table
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher Lee
m
a
pping
tu
t
orial just c
o
vers mappings
,
so
remove
d
refe
r
ence
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
h
ris
t
opher
L
e
e
ad
d
ed MapView
inver
s
e example to tutorial
commit
|
commitdiff
|
tree
2009-09-04
C
h
ristopher Lee
added MapView docs
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
added
t
est f
o
r trapping non-invertible
MapVi
e
w
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
a
d
ded test
f
or __in
v
ert__ met
h
od t
o
MapView
commit
|
commitdiff
|
tree
2009-09-04
C
h
ristop
h
er Lee
added __invert
_
_ method t
o
MapView
commit
|
commitdiff
|
tree
2009-09-04
Christop
h
er Lee
add
e
d mate
r
ia
l
on SQL MapVie
w
commit
|
commitdiff
|
tree
2009-09-04
Christop
h
er Lee
added sections o
n
mapping to disk / wor
l
dbase
commit
|
commitdiff
|
tree
2009-09-04
Christ
o
ph
e
r
Lee
changed title of
xm
l
rpc tutorial
commit
|
commitdiff
|
tree
2009-09-04
Christopher
Lee
mi
n
or fixes to gene tutorial
commit
|
commitdiff
|
tree
2009-09-04
C
hr
i
s
to
p
her Lee
moved
m
a
terial o
u
t of
w
o
rldbase
.
rst
t
o
w
orldbase2
.
rst
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
s
t
opher Lee
separate tut
o
ri
a
l
on saving data to worldbase
commit
|
commitdiff
|
tree
2009-09-04
Chri
s
to
p
he
r
Lee
moved schema
ma
t
erial to
w
o
r
l
d
base2
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Chris
t
opher Le
e
adde
d
worldbase
s
ecurity warni
n
g
commit
|
commitdiff
|
tree
2009-09-03
C
h
ristopher Lee
more revi
s
ions a
b
out downloading tutorial
commit
|
commitdiff
|
tree
2009-09-03
Ch
r
i
stopher
Lee
revisions to download=True secti
o
n
commit
|
commitdiff
|
tree
2009-09-03
Christo
p
he
r
L
ee
added
d
ependency section
i
n worldbase
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christo
p
her L
e
e
add
e
d w
o
rldbas
e
.
dir(
)
t
u
tori
a
l
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
added intro s
e
ction
to worl
d
base
.
rst tut
o
rial
commit
|
commitdiff
|
tree
2009-09-03
Christopher
L
ee
added Purpose to a
l
ignment
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christoph
e
r L
e
e
more li
t
tle changes t
o
an
n
otation2
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christophe
r
Lee
added Pu
r
pose an
d
int
r
o to annotations2
.
r
st
commit
|
commitdiff
|
tree
2009-09-03
Chris
t
opher
L
ee
moved new bas
i
c tuto
r
ials
to top of guide list
commit
|
commitdiff
|
tree
2009-09-03
Chri
s
t
ophe
r
Lee
minor fix t
o
db_basic
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christop
h
er Lee
updates to refer
e
n
ce
/
sqlgrap
h
.
rst
d
o
c
s
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
added SQL
saving
s
e
c
tion to db tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher Le
e
basic d
a
tabase tu
t
or
i
al
commit
|
commitdiff
|
tree
2009-09-03
C
hristopher Lee
added
b
ack __le
n
__() to
S
QLTa
b
l
e
Base
.
H
o
w in heck
.
.
.
commit
|
commitdiff
|
tree
2009-09-03
Chri
s
topher Lee
added
section on Pre
f
ixUnionDict
commit
|
commitdiff
|
tree
2009-09-02
Ch
r
istopher Lee
a
d
ded section on plugging in you
r
own
s
equence parser
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
m
oved old material
o
ut to comp
g
enomic
s
.
r
st
commit
|
commitdiff
|
tree
2009-09-02
Chr
i
stopher Lee
some
m
ino
r
sequence t
u
torial revisions
commit
|
commitdiff
|
tree
2009-09-02
C
hri
s
tophe
r
Le
e
adde
d
tutorial section on accessing sequence
d
atabase
.
.
.
commit
|
commitdiff
|
tree
2009-09-02
Christopher Le
e
split up
bullet po
i
nts to inte
g
rate in
t
o the code exa
m
p
le
commit
|
commitdiff
|
tree
2009-09-02
Chri
s
top
h
er Lee
revi
s
ed sequence tutori
a
l intro (first part)
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
Merg
e
c
ommit '
r
e
motes/ctb
/
xmlrpc_tutorial' into tut
o
rial
commit
|
commitdiff
|
tree
2009-09-02
Chri
s
topher Lee
Mer
g
e
commit 'remo
t
es/ct
b
/doc
_
alignment'
i
nt
o
tu
t
orial
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
revised gff3 code
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
a
d
ded GFF3 e
x
amp
l
e of
g
e
n
e building
commit
|
commitdiff
|
tree
2009-09-01
Christ
o
pher
Le
e
Me
r
ge commit 'remotes
/
mkszuba/xml
r
pc_tutorial' i
n
t
o
.
.
.
commit
|
commitdiff
|
tree
2009-09-01
Christ
o
pher Le
e
Merg
e
co
m
m
it
'remote
s
/c
t
b
/doc
_
annota
t
ions' into tu
t
ori
a
l
commit
|
commitdiff
|
tree
2009-09-01
Ch
r
istopher Lee
extracted materia
l
f
o
r
sep
a
r
a
t
e
da
t
abase tutorial
commit
|
commitdiff
|
tree
2009-08-29
C
hris
t
opher Lee
r
e
moved unnecessary stat and
shu
t
il import from setup
.
p
y
commit
|
commitdiff
|
tree
2009-08-14
Ch
r
i
s
tophe
r
Lee
fixe
d
e
asy_in
s
tall bug by protecting coordinator
.
R
esourceFi
l
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christopher Lee
fixed bl
a
st_test: renamed test_se
q
_witho
u
t_d
b
() to
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christophe
r
Lee
Merge
c
ommit 'remotes/ctb/minor_f
i
xes' into minor_fixes
commit
|
commitdiff
|
tree
2009-08-04
Christophe
r
Lee
fix port passing in
t
estutil
.
TestXMLRPCS
e
rver
commit
|
commitdiff
|
tree
2009-08-04
C
hristopher Le
e
u
s
e pa
i
r
_identity_tuple() for blast_test formatti
n
g
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Chr
i
sto
p
her
L
ee
added BlastBase
.
te
a
rDown() to close seqd
b
s
a
s they
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christopher Lee
Me
r
ge commit
'
remotes
/
m
k
szuba/doc_make'
commit
|
commitdiff
|
tree
2009-08-04
Christopher Le
e
M
erge commit 'remotes/mkszuba/rpm
'
commit
|
commitdiff
|
tree
2009-07-29
Chr
i
s
t
oph
e
r
Lee
got
rid of B
l
astMapp
i
ng
.
warn_ab
o
ut_se
l
f
_
matches(
)
commit
|
commitdiff
|
tree
2009-07-29
Christopher
Lee
c
h
a
ng
e
d N
L
MSA pairw
i
seMo
d
e to a
l
lo
w
r
e
porting of
s
elf
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
Christ
o
pher Lee
Merge commit 'remo
t
es/mkszuba/debian
'
commit
|
commitdiff
|
tree
2009-07-29
Christophe
r
Lee
retry reading port_file in T
e
s
t
XMLRPC
S
e
r
ve
r
s
e
veral
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
Christopher Lee
a
d
ded comments to p
r
ocess
_
blast()
commit
|
commitdiff
|
tree
2009-07-29
C
h
ristop
h
er Lee
fix problem i
n
troduc
e
d in process_blas
t
() by commit
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
C
h
ristophe
r
Lee
h
a
n
d
l
e
mis
s
ing WINDIR c
a
se on Windows
commit
|
commitdiff
|
tree
2009-07-28
Ch
r
istopher Lee
ad
d
ed SeqTranslator
.
_
_
repr__()
commit
|
commitdiff
|
tree
2009-07-28
C
h
ristoph
e
r Lee
Merge commit 'remo
t
es/ctb
/
simp
l
efram
e
_forma
t
db_clean
u
p
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
C
h
ristopher
Lee
Merge branch 'master' into simpleframe
commit
|
commitdiff
|
tree
2009-07-28
Chr
i
stopher Lee
a
d
ded SeqT
r
anslator
.
i
te
r
_frames()
m
et
h
od, us
e
d in BlastxMapp
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Christoph
e
r Lee
Mer
g
e co
m
m
i
t 'remot
e
s/ctb/sim
p
leframe_doc_align' into
.
.
.
commit
|
commitdiff
|
tree
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