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first implementation of BlockGenerator iteration mechanism
2009-09-09
Christo
p
her
Lee
first imple
m
e
ntati
o
n of Bl
o
ckGene
r
ator itera
t
ion mechanism
commit
|
commitdiff
|
tree
2009-09-09
Christo
p
he
r
Lee
m
ake iterval
u
e
s
/
iteritems use
same o
r
derB
y
rules
commit
|
commitdiff
|
tree
2009-09-09
Christopher Lee
generalized iter_keys(), added orderBy
s
upport
commit
|
commitdiff
|
tree
2009-09-08
C
h
ri
s
topher Lee
cr
e
ated MySQ
L
S
e
rverInf
o
class tha
t
uses SSCurso
r
for
.
.
.
commit
|
commitdiff
|
tree
2009-09-08
Chr
i
sto
p
he
r
Lee
a
dded useStreaming op
t
i
o
n to
mysql_connect(
)
commit
|
commitdiff
|
tree
2009-09-08
C
hristop
h
er Lee
fixed new_cursor
(
)
to p
r
opagate arrays
i
z
e
s
e
ttin
g
p
r
operly
commit
|
commitdiff
|
tree
2009-09-05
Chris
t
opher Lee
added test
for bug 84
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
fixed bug 84
commit
|
commitdiff
|
tree
2009-09-05
Christ
o
pher L
e
e
a
dded test
f
o
r
Gr
a
phView keys / len o
n
ly reflecting
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
t
opher L
e
e
added
i
nv
e
rse supp
o
rt for GraphView
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
added test for Graph
V
iew inverse
a
nd im
p
r
o
v
e
d M
a
pView
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
C
h
ri
s
topher Lee
m
a
ke GraphView raise Key
E
rror if
k
ey has no rows in
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christophe
r
Lee
a
d
ded tests
f
or MapV
i
ew
i
terat
o
r
s and
len
commit
|
commitdiff
|
tree
2009-09-05
Christop
h
er L
e
e
a
v
oid possible i
t
er / keys inf
i
nite loop
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
topher
L
e
e
added lots of tests for graphs with nodes instea
d
of
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christo
p
her Le
e
corrected the
S
QLGraph it
e
rator methods and im
p
rov
e
d
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christopher L
e
e
tes
t
u
t
il
n
e
eded new name
of
g
et_name_curs
o
r()
commit
|
commitdiff
|
tree
2009-09-05
C
hristopher Lee
made
g
et_name_cur
s
or() u
s
e
D
BServ
e
rI
n
fo
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
added
it
e
ration t
e
s
t
t
o
gr
a
ph_te
s
t
.
py
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
topher L
e
e
use new
iter_k
e
ys
(
) method
commit
|
commitdiff
|
tree
2009-09-05
Christophe
r
Lee
added be
t
t
e
r
it
e
r me
t
h
od
commit
|
commitdiff
|
tree
2009-09-04
Christop
h
er Lee
Merge commit
'
remotes/ctb/xm
l
rpc_pa
t
c
he
s
'
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Merg
e
commit
'
r
em
o
te
s
/mkszuba/fink'
commit
|
commitdiff
|
tree
2009-09-04
Christopher
L
e
e
removed tests/o
l
dte
s
ts/nlms
a
_dm2_megatest
.
py
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Merge
commit 'remo
t
e
s
/mkszuba/docfixes
'
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Mer
g
e commi
t
'remotes/mk
s
zuba/cleanup'
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher L
e
e
M
e
rge commit 'remotes/mkszuba/bsddb
_
bsddb3'
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
istopher
Lee
corrected
C
lassicUnpickler
r
efere
n
ce to point to classutil
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
removed unused shelve impo
r
t
commit
|
commitdiff
|
tree
2009-09-04
Chri
s
top
h
er Lee
r
e
moved unused import ite
m
commit
|
commitdiff
|
tree
2009-09-04
Chri
s
toph
e
r Le
e
Merge
b
ran
c
h 'tutorial'
commit
|
commitdiff
|
tree
2009-09-04
Christopher
L
ee
added argumen
t
to make M
a
pView
inverse a
b
l
e
to re
c
onstitute
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher Lee
added test of len() meth
o
d
f
o
r SQLTa
b
le
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
is
t
opher Lee
add
e
d db
t
uto
r
ial (mapping)
b
ack to
guideli
s
t ta
b
le
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
hristoph
e
r
Lee
m
a
p
p
i
ng tutorial ju
s
t
c
overs map
p
ings, so rem
o
ved reference
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher Lee
a
d
d
ed MapView inverse example to tu
t
ori
a
l
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
added MapView
d
ocs
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
ad
d
ed tes
t
f
or tra
p
ping n
o
n-invertible
M
apView
commit
|
commitdiff
|
tree
2009-09-04
C
h
ristopher Lee
added
t
e
s
t for
__in
v
ert__ method to
MapVi
e
w
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher Le
e
added _
_
i
n
vert__
me
t
hod t
o
MapView
commit
|
commitdiff
|
tree
2009-09-04
Christo
p
her Lee
a
d
ded
material o
n
S
Q
L
MapView
commit
|
commitdiff
|
tree
2009-09-04
Christophe
r
Le
e
added s
e
ctions on map
p
ing to
d
isk / worldbase
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
chan
g
ed title of xmlrpc tut
o
ri
a
l
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
minor fixes to ge
n
e tu
t
orial
commit
|
commitdiff
|
tree
2009-09-04
C
hristop
h
er L
e
e
moved material out of worldbase
.
rst to worldbase2
.
rst
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
ophe
r
Lee
separate t
u
torial on saving dat
a
to
wor
l
dbase
commit
|
commitdiff
|
tree
2009-09-04
Christopher
L
e
e
m
oved schema material
t
o worldbas
e
2
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
added worldba
s
e
security w
a
rning
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
sto
p
he
r
L
ee
m
o
re
revisio
n
s
about
d
ownloading tutoria
l
commit
|
commitdiff
|
tree
2009-09-03
Chris
t
opher L
e
e
rev
i
sions to d
o
wnload=
T
rue
section
commit
|
commitdiff
|
tree
2009-09-03
Christoph
e
r Lee
added
d
epende
n
cy section in
wo
r
ldbase
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Chris
t
ophe
r
Lee
a
d
ded worldbas
e
.
dir() t
u
tori
a
l
commit
|
commitdiff
|
tree
2009-09-03
Christop
h
e
r
Lee
added intr
o
s
ecti
o
n t
o
w
o
r
ldbase
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
C
h
ris
t
opher Lee
added Purpose to align
m
e
nt
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
stop
h
er Lee
mo
r
e l
i
ttle chang
e
s to
annotation2
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christophe
r
Lee
added Pu
r
pose
a
n
d
intro to annotations2
.
r
st
commit
|
commitdiff
|
tree
2009-09-03
C
hristopher L
e
e
moved new basic tutoria
l
s
to top of guide
list
commit
|
commitdiff
|
tree
2009-09-03
Christophe
r
L
e
e
minor fix to
db_ba
s
i
c
.
rst
commit
|
commitdiff
|
tree
2009-09-03
C
hr
i
stopher Lee
u
p
d
a
tes
to ref
e
rence
/
sqlgraph
.
rst doc
s
commit
|
commitdiff
|
tree
2009-09-03
Ch
r
is
t
opher Lee
a
dded
S
QL s
a
ving
s
ec
t
ion to db tutorial
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
st
o
pher Lee
ba
s
i
c databas
e
tutoria
l
commit
|
commitdiff
|
tree
2009-09-03
Christ
o
pher
L
ee
adde
d
bac
k
__len__() to SQLTableBase
.
H
o
w in heck
.
.
.
commit
|
commitdiff
|
tree
2009-09-03
Chris
t
o
p
her
Lee
add
e
d
s
e
ctio
n
on PrefixUnionDict
commit
|
commitdiff
|
tree
2009-09-02
C
hristopher Lee
added
se
c
tion on plugging i
n
yo
u
r own se
q
uenc
e
par
s
er
commit
|
commitdiff
|
tree
2009-09-02
Christoph
e
r L
e
e
mo
v
ed old
material out to compgenom
i
cs
.
rst
commit
|
commitdiff
|
tree
2009-09-02
C
h
ristopher L
e
e
s
o
me minor sequence tutorial r
e
visions
commit
|
commitdiff
|
tree
2009-09-02
Ch
r
istopher Lee
added tu
t
or
i
al section on acc
e
ssing
s
eq
u
ence database
.
.
.
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
split up bull
e
t points to
integrate
i
nto
th
e
c
od
e
example
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
re
v
ised seq
u
enc
e
tut
o
rial intro (first part)
commit
|
commitdiff
|
tree
2009-09-02
Christoph
e
r
Lee
Merge commit 'remotes/ctb
/
x
m
lrpc_tutorial' into tutorial
commit
|
commitdiff
|
tree
2009-09-02
C
h
ristopher Lee
M
erge commit 'remotes/ctb
/
doc
_
alignmen
t
'
i
nto tutorial
commit
|
commitdiff
|
tree
2009-09-02
Christ
o
pher Lee
revised g
f
f3 cod
e
commit
|
commitdiff
|
tree
2009-09-02
Christ
o
pher
Lee
a
dded GF
F
3 example of gene building
commit
|
commitdiff
|
tree
2009-09-01
Christopher
L
e
e
Mer
g
e co
m
mit 'remotes/mkszuba/xmlrp
c
_t
u
torial' int
o
.
.
.
commit
|
commitdiff
|
tree
2009-09-01
Chri
s
t
o
p
h
e
r
Le
e
Me
r
ge
commit '
r
emotes/
c
tb/
d
oc_an
n
otations' into tutor
i
al
commit
|
commitdiff
|
tree
2009-09-01
Christopher Lee
extracted
m
ate
r
ial for separ
a
t
e database t
u
t
o
rial
commit
|
commitdiff
|
tree
2009-08-29
Christopher Lee
r
e
moved unnecessa
r
y stat and
s
h
u
t
i
l
i
m
port fro
m
setup
.
p
y
commit
|
commitdiff
|
tree
2009-08-14
Ch
r
istopher Lee
fixed ea
s
y_i
n
s
t
al
l
bug
by p
r
otecting
coordin
a
tor
.
Re
s
ourceFil
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christopher Lee
fixed blast_test: renamed test_seq_with
o
ut_
d
b
()
t
o
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
C
h
r
istopher Lee
M
e
rg
e
commit
'remote
s
/ctb/mino
r
_fix
e
s' into minor_fixes
commit
|
commitdiff
|
tree
2009-08-04
Christ
o
pher
Lee
fix p
o
rt passing
in testu
t
il
.
T
e
stXMLRP
C
Se
r
ver
commit
|
commitdiff
|
tree
2009-08-04
Chris
t
opher Lee
use pair_identity_tuple() for blast_
t
e
st formatting
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christ
o
pher Lee
added BlastBa
s
e
.
tearD
o
wn()
t
o close se
q
dbs as they
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
C
h
ris
t
o
pher Lee
Merge commit
'
remotes/mkszub
a
/doc_m
a
k
e
'
commit
|
commitdiff
|
tree
2009-08-04
Ch
r
istophe
r
Lee
Merge c
o
mmit 'r
e
motes/mkszuba/rpm
'
commit
|
commitdiff
|
tree
2009-07-29
C
h
ristopher L
e
e
go
t
rid
o
f BlastMapping
.
warn_ab
o
ut_self_matches()
commit
|
commitdiff
|
tree
2009-07-29
Christopher L
e
e
c
h
anged NLMSA pairwiseMode to allow reporting of self
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
Christopher Le
e
M
e
rge c
o
mmi
t
'remot
e
s/mkszuba/debian'
commit
|
commitdiff
|
tree
2009-07-29
Christop
h
er Lee
retry reading por
t
_file in TestXML
R
PCServer se
v
eral
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
C
hristophe
r
Lee
added comme
n
ts to
process_blast()
commit
|
commitdiff
|
tree
2009-07-29
Christ
o
pher Lee
f
i
x
p
roblem
i
nt
r
oduced in p
r
ocess_blast() by commit
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Christop
h
er Le
e
h
an
d
le
m
issing WIND
I
R case on Windows
commit
|
commitdiff
|
tree
2009-07-28
Christo
p
her Lee
added SeqTrans
l
ator
.
__
r
e
pr__()
commit
|
commitdiff
|
tree
2009-07-28
C
h
r
i
stophe
r
Lee
Merge commit 'remotes/ctb/simpl
e
frame_fo
r
ma
t
d
b_c
l
ea
n
up
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Christo
p
her Lee
Merge branch 'master' into simpl
e
fra
m
e
commit
|
commitdiff
|
tree
2009-07-28
C
hristopher Lee
add
e
d SeqTransl
a
tor
.
iter_
f
rames() met
h
od,
u
se
d
in Blast
x
M
a
p
p
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Chr
i
stopher Lee
Merg
e
com
m
it 'remotes/ctb
/
simpleframe
_
doc
_
align'
i
n
to
.
.
.
commit
|
commitdiff
|
tree
2009-07-27
Ch
r
i
s
top
h
e
r
Lee
protect 2 m
o
re tests
using blast
_
enabled() che
c
k
commit
|
commitdiff
|
tree
2009-07-27
Ch
r
ist
o
phe
r
Lee
fixe
d
syntax error
commit
|
commitdiff
|
tree
2009-07-27
Chri
s
topher Lee
added python 2
.
3 code fo
r
FilePopen to detect bad exit
.
.
.
commit
|
commitdiff
|
tree
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