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first implementation of BlockGenerator iteration mechanism
2009-09-09
Christopher
L
ee
fir
s
t implementation
of Bloc
k
Generat
o
r iter
a
tion m
e
chanis
m
commit
|
commitdiff
|
tree
2009-09-09
Christo
p
her Lee
make i
t
ervalues / iteritems use
same o
r
derBy rules
commit
|
commitdiff
|
tree
2009-09-09
Christoph
e
r L
e
e
generalized
iter_keys(), added or
d
erBy suppo
r
t
commit
|
commitdiff
|
tree
2009-09-08
Christop
h
er Lee
created MySQLServ
e
rInfo
clas
s
that
u
s
e
s
S
S
Cur
s
or for
.
.
.
commit
|
commitdiff
|
tree
2009-09-08
Chr
i
stopher Lee
added
u
seStreaming opt
i
o
n to mysq
l
_
co
n
nect
(
)
commit
|
commitdiff
|
tree
2009-09-08
Ch
r
isto
p
her Lee
f
ixed new_cursor() to p
r
opagate ar
r
aysize setting prope
r
ly
commit
|
commitdiff
|
tree
2009-09-05
Christo
p
h
e
r Lee
added test f
o
r bug
8
4
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
fixed bug 84
commit
|
commitdiff
|
tree
2009-09-05
C
h
r
i
s
to
p
h
e
r Lee
added test for Graph
V
iew keys / l
e
n only reflecti
n
g
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
C
h
ristop
h
e
r Lee
a
d
de
d
inverse suppo
r
t fo
r
GraphView
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
topher
L
ee
added test
for Graph
V
i
e
w inverse and improved Ma
p
View
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
mak
e
G
raph
V
iew raise Key
E
rro
r
if
key ha
s
n
o
rows
i
n
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Chris
t
o
p
her Lee
a
d
ded tests
f
o
r
M
a
pView iterators a
n
d len
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
a
v
oid possible
i
ter / keys infinite
l
oop
commit
|
commitdiff
|
tree
2009-09-05
C
h
r
istopher Lee
added lots of tests for
graphs wi
t
h nod
e
s instead of
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Chris
t
opher Lee
correct
e
d
t
he SQLGraph
iterator
m
e
th
o
ds
an
d
improved
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
C
hristopher Lee
testutil needed
n
ew
n
ame
of get_
n
ame_cu
r
sor()
commit
|
commitdiff
|
tree
2009-09-05
Chri
s
to
p
he
r
Lee
made get_
n
ame_cu
r
sor()
use DBS
e
rverI
n
f
o
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
a
d
d
ed
i
tera
t
ion
t
est t
o
gra
p
h_test
.
py
commit
|
commitdiff
|
tree
2009-09-05
Christopher
Lee
use new iter_key
s
() me
t
hod
commit
|
commitdiff
|
tree
2009-09-05
Chris
t
opher Lee
a
dded better
i
ter method
commit
|
commitdiff
|
tree
2009-09-04
Christoph
e
r Lee
Me
r
ge
co
m
mit
'remot
e
s/ctb
/
xmlrpc_patches'
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Merge commit 'remotes/m
k
sz
u
ba/fink'
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher Lee
r
em
o
v
e
d tes
t
s/oldtests/nlmsa_dm2_megatest
.
py
commit
|
commitdiff
|
tree
2009-09-04
Chri
s
topher Lee
Merge commit 'remotes/
m
k
szu
b
a/docfixes'
commit
|
commitdiff
|
tree
2009-09-04
Christop
h
er Lee
Merge
c
ommit 'remotes/mks
z
uba/cleanup'
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Merge com
m
i
t
'
remotes/mk
s
zuba/bsdd
b
_
b
sddb3'
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
s
t
opher
Lee
corrected
C
lassicUnp
i
c
kl
e
r r
e
f
e
rence to point t
o
classutil
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
s
t
op
h
er
Lee
r
e
moved unused s
h
elve impo
r
t
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher Lee
remove
d
u
n
used
i
mport
ite
m
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
Merge
b
ranch 'tutorial'
commit
|
commitdiff
|
tree
2009-09-04
Christopher
Le
e
added argument to make Ma
p
V
iew inverse able to reco
n
stitute
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher
L
e
e
added test of l
e
n() meth
o
d for
S
QLTable
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher
L
ee
a
dded
d
b tut
o
r
i
al
(
mapping) ba
c
k to guid
e
li
s
t tabl
e
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Christo
p
her Lee
mapping tu
t
o
r
i
al just co
v
ers map
p
ings, so removed referen
c
e
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher
L
ee
added MapView inverse example to tut
o
ri
a
l
commit
|
commitdiff
|
tree
2009-09-04
C
h
ristopher Lee
add
e
d Ma
p
View
d
oc
s
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
added te
s
t
f
o
r
trapping
n
on-in
v
ertible MapView
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
a
d
ded test for __invert__ meth
o
d
t
o MapView
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher L
e
e
ad
d
ed __inve
r
t__ method
t
o MapVi
e
w
commit
|
commitdiff
|
tree
2009-09-04
Christophe
r
L
ee
a
dded material on SQ
L
MapView
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher Le
e
a
dd
e
d
s
ections on mapping to disk
/
worl
d
base
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
c
hanged title o
f
xmlrpc tu
t
orial
commit
|
commitdiff
|
tree
2009-09-04
Christopher L
e
e
mi
n
or fixes to gene tutoria
l
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
mov
e
d
mat
e
rial out of wo
r
ldbase
.
rst
t
o
worldbase2
.
r
st
commit
|
commitdiff
|
tree
2009-09-04
Christopher
Lee
separate
t
u
t
o
rial on
sav
i
n
g
data
t
o worldbase
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher Lee
moved sc
h
ema mat
e
ria
l
t
o
worldbase2
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
C
h
ristopher Le
e
added worldbase
security
warni
n
g
commit
|
commitdiff
|
tree
2009-09-03
C
h
ristophe
r
Lee
more revisions a
b
out downloading tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
revisio
n
s to
d
o
w
nload
=
True
se
c
tion
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
stopher Lee
ad
d
ed dependency
s
ecti
o
n in w
o
rldbase
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher Le
e
added worldbase
.
dir
(
) tutori
a
l
commit
|
commitdiff
|
tree
2009-09-03
Christop
h
er Lee
a
d
ded intro section to worldbase
.
rst tutor
i
al
commit
|
commitdiff
|
tree
2009-09-03
C
h
ristop
h
e
r
Lee
ad
d
ed
P
urpose to alignment
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christoph
e
r Lee
more little
c
hange
s
to
a
nnotation
2
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
added Purpose
a
nd intro to annotations2
.
rs
t
commit
|
commitdiff
|
tree
2009-09-03
C
hr
i
stopher Lee
moved new ba
s
ic tu
t
oria
l
s to top of g
u
ide
list
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
s
t
opher Lee
mino
r
f
i
x to db_basic
.
rs
t
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
stopher
L
e
e
update
s
to ref
e
rence/sqlgraph
.
rs
t
docs
commit
|
commitdiff
|
tree
2009-09-03
C
hr
i
stopher Lee
added SQL
s
a
v
ing section to d
b
t
utorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher
Lee
b
a
sic database tut
o
ria
l
commit
|
commitdiff
|
tree
2009-09-03
Ch
r
istophe
r
L
ee
added ba
c
k __
l
en__
(
)
t
o S
Q
L
T
a
b
leBase
.
How in heck
.
.
.
commit
|
commitdiff
|
tree
2009-09-03
Christoph
e
r Le
e
adde
d
section on P
r
efixUnionDict
commit
|
commitdiff
|
tree
2009-09-02
Chri
s
topher Lee
ad
d
ed section on plug
g
ing in your
own s
e
quence parser
commit
|
commitdiff
|
tree
2009-09-02
C
h
ristopher Lee
move
d
old
ma
t
erial
o
ut to compg
e
nomics
.
rst
commit
|
commitdiff
|
tree
2009-09-02
Chris
t
op
h
er Lee
s
ome
minor sequ
e
nce tut
o
rial revisions
commit
|
commitdiff
|
tree
2009-09-02
Christoph
e
r Lee
ad
d
ed tut
o
rial se
c
tion on accessing sequence d
a
tabase
.
.
.
commit
|
commitdiff
|
tree
2009-09-02
Christopher Le
e
s
p
lit up bull
e
t points to
i
nte
g
r
a
te into the
cod
e
exa
m
ple
commit
|
commitdiff
|
tree
2009-09-02
Christ
o
pher Lee
revised
s
eq
u
ence tutorial
intro (fi
r
s
t part)
commit
|
commitdiff
|
tree
2009-09-02
Ch
r
istopher Lee
Merge co
m
mit
'
remote
s
/ctb
/
xmlrpc_
t
utorial' into tutorial
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
Merge co
m
m
i
t '
r
emotes/ctb/
d
oc_a
l
ignm
e
nt' into
t
utorial
commit
|
commitdiff
|
tree
2009-09-02
Christopher Le
e
revised
g
f
f
3
code
commit
|
commitdiff
|
tree
2009-09-02
Ch
r
istopher Lee
add
e
d GFF3 example
o
f g
e
n
e buil
d
ing
commit
|
commitdiff
|
tree
2009-09-01
Christoph
e
r Le
e
Merge comm
i
t
'remotes/m
k
szuba/xml
r
pc_tutorial' into
.
.
.
commit
|
commitdiff
|
tree
2009-09-01
Christopher Lee
Merg
e
c
o
mmit 'remotes/ct
b
/doc_ann
o
tat
i
ons
'
i
n
t
o
tut
o
rial
commit
|
commitdiff
|
tree
2009-09-01
Christopher Lee
extracted materi
a
l for sep
a
rate da
t
a
b
ase
t
utorial
commit
|
commitdiff
|
tree
2009-08-29
Chr
i
sto
p
her
L
ee
removed unn
e
cessary
s
tat
a
nd shutil
imp
o
rt
from setup
.
py
commit
|
commitdiff
|
tree
2009-08-14
Ch
r
istopher Lee
fi
x
ed easy_install bu
g
b
y
protecting
c
o
ordin
a
tor
.
ResourceF
i
l
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christopher Lee
fixed blast_test: ren
a
m
e
d test_seq_
w
i
t
hout_
d
b
(
) t
o
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christophe
r
Lee
Merg
e
commi
t
'
r
emotes/ctb/min
o
r
_fi
x
e
s'
i
nto
m
inor
_
fixes
commit
|
commitdiff
|
tree
2009-08-04
Christopher
Lee
fix port
p
a
ssin
g
in testut
i
l
.
TestXMLRPCS
e
rver
commit
|
commitdiff
|
tree
2009-08-04
Christ
o
pher
L
ee
u
se pa
i
r_id
e
ntity_t
u
p
l
e
() for blas
t
_test formatting
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
C
hristopher
Lee
a
d
ded BlastBase
.
t
e
arDown() to close seqdb
s
as t
h
ey
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
C
hris
t
opher L
e
e
Merge commit 'rem
o
tes
/
mkszuba/d
o
c_make'
commit
|
commitdiff
|
tree
2009-08-04
Christopher
L
e
e
Merge commit 'remotes/mkszuba/rpm'
commit
|
commitdiff
|
tree
2009-07-29
C
h
ristopher
Lee
g
ot r
i
d
of BlastMapping
.
warn_abo
u
t_sel
f
_ma
t
ches()
commit
|
commitdiff
|
tree
2009-07-29
Christop
h
er Le
e
changed NLMSA pairwiseMode to allow reporti
n
g
of self
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
C
hri
s
toph
e
r Lee
Merge commit 'remotes/mkszuba/debian'
commit
|
commitdiff
|
tree
2009-07-29
Chris
t
opher Lee
r
e
try reading po
r
t_file i
n
TestX
M
L
RPC
S
e
r
v
e
r
several
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
Christo
p
her
L
e
e
added commen
t
s
t
o process_bla
s
t(
)
commit
|
commitdiff
|
tree
2009-07-29
Christopher Lee
f
i
x prob
l
em introduced
in
p
rocess_blast() b
y
commi
t
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Ch
r
istopher Lee
h
andle
missing W
I
N
D
IR case on Windows
commit
|
commitdiff
|
tree
2009-07-28
Chris
t
oph
e
r
Lee
added
S
eqTranslator
.
__re
p
r__()
commit
|
commitdiff
|
tree
2009-07-28
Christopher Lee
M
e
rge commit 'remotes/ctb/simpleframe_formatdb_cleanup
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
C
h
rist
o
p
h
e
r Lee
M
e
r
ge branc
h
'master' into simp
l
eframe
commit
|
commitdiff
|
tree
2009-07-28
Chr
i
stophe
r
Lee
added SeqTranslator
.
it
e
r_frames() m
e
thod, used in BlastxMapp
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Chris
t
opher Lee
Merge
commit 'remotes/ctb/simpleframe_doc_align' i
n
to
.
.
.
commit
|
commitdiff
|
tree
2009-07-27
C
h
ri
s
t
opher L
e
e
p
r
o
tect 2 more tests using blast_enab
l
ed() check
commit
|
commitdiff
|
tree
2009-07-27
Christop
h
er Lee
fixed syntax
e
rro
r
commit
|
commitdiff
|
tree
2009-07-27
C
h
ristophe
r
Le
e
added
p
ython
2
.
3 code
for FilePope
n
to detec
t
bad ex
i
t
.
.
.
commit
|
commitdiff
|
tree
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