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added test for GraphView inverse and improved MapView inverse test
2009-09-05
C
hr
i
stop
h
er Lee
a
dded test for Grap
h
Vie
w
inver
s
e and improved MapView
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
C
h
ristopher Lee
m
a
ke GraphView ra
i
se
K
eyError if key has n
o
r
o
ws in
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christo
p
her Lee
ad
d
ed tests for MapView
i
terators and
l
en
commit
|
commitdiff
|
tree
2009-09-05
Ch
r
istopher Lee
avoi
d
possible
i
ter / keys infinite loop
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
a
d
ded
l
ots of tes
t
s for gr
a
phs wit
h
nodes ins
t
e
ad o
f
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christop
h
er Lee
corrected the SQLGraph i
t
erator methods and
i
mproved
.
.
.
commit
|
commitdiff
|
tree
2009-09-05
Christopher L
e
e
testutil need
e
d
new name of
get
_
name_cu
r
s
or()
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
made g
e
t
_
n
ame_cursor() use DBServerInf
o
commit
|
commitdiff
|
tree
2009-09-05
Chr
i
stop
h
er Lee
added iteration t
e
s
t
to gra
p
h_test
.
p
y
commit
|
commitdiff
|
tree
2009-09-05
Christopher Lee
use new iter_
k
eys() method
commit
|
commitdiff
|
tree
2009-09-05
C
h
ristopher Lee
added better iter
m
ethod
commit
|
commitdiff
|
tree
2009-09-04
C
hristoph
e
r
Lee
Merge com
m
i
t
're
m
otes/ctb/xmlrpc_patche
s
'
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher L
e
e
Me
r
g
e
commit 're
m
o
tes/mkszu
b
a/
f
in
k
'
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
istopher Lee
remove
d
tests/
o
l
d
tests/nlm
s
a
_dm2_mega
t
est
.
py
commit
|
commitdiff
|
tree
2009-09-04
Christop
h
er Lee
Merge com
m
i
t
'remot
e
s/m
k
szuba/do
c
fixes'
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
istoph
e
r
L
e
e
Merge
commit 'remotes/mkszu
b
a
/cl
e
anup'
commit
|
commitdiff
|
tree
2009-09-04
Christ
o
pher
Lee
Merg
e
commit
'
remotes/mkszuba
/
bsddb_bsddb3'
commit
|
commitdiff
|
tree
2009-09-04
C
hris
t
op
h
er Lee
correcte
d
Cla
s
sic
U
npickler
r
eference to point to
c
l
assutil
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
stophe
r
Lee
removed un
u
sed shelve
i
mpor
t
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
ophe
r
Lee
remo
v
ed unused import
i
te
m
commit
|
commitdiff
|
tree
2009-09-04
C
hris
t
opher Le
e
Me
r
ge branch 'tutorial'
commit
|
commitdiff
|
tree
2009-09-04
Christop
h
er Lee
added argu
m
ent to make M
a
pView inverse
a
b
le to reconstitut
e
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
C
h
r
is
t
opher Le
e
added test o
f
le
n
() m
e
thod
for
S
QLTa
b
l
e
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
stopher Lee
added db tut
o
rial (mapping) back to guidelist t
a
ble
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
stoph
e
r
L
ee
mapping tutorial jus
t
c
overs ma
p
ping
s
, so re
m
o
v
ed reference
.
.
.
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
ophe
r
Lee
ad
d
ed MapView
i
nve
r
se example to
t
utorial
commit
|
commitdiff
|
tree
2009-09-04
Christopher Lee
add
e
d MapView d
o
cs
commit
|
commitdiff
|
tree
2009-09-04
Chr
i
stopher Lee
added test f
o
r
trapp
i
ng
non-invertible MapView
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
istoph
e
r
L
ee
a
dded tes
t
for
_
_invert__ me
t
h
o
d
t
o MapView
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher L
e
e
added __
i
nvert__ method
to
MapView
commit
|
commitdiff
|
tree
2009-09-04
C
hristo
p
her
L
e
e
a
d
ded mat
e
ria
l
on SQL MapView
commit
|
commitdiff
|
tree
2009-09-04
Christoph
e
r Lee
added
s
e
ctions o
n
map
p
ing to disk / world
b
as
e
commit
|
commitdiff
|
tree
2009-09-04
C
hristopher Lee
changed tit
l
e of xm
l
rpc tut
o
ri
a
l
commit
|
commitdiff
|
tree
2009-09-04
Christopher
L
e
e
minor fixes to gene tutorial
commit
|
commitdiff
|
tree
2009-09-04
Christopher
Lee
move
d
ma
t
er
i
al out of
w
orldbase
.
r
s
t to worldbase2
.
rst
commit
|
commitdiff
|
tree
2009-09-04
Chris
t
opher Lee
separate tutorial o
n
savi
n
g
d
ata to world
b
ase
commit
|
commitdiff
|
tree
2009-09-04
Ch
r
istoph
e
r Lee
mo
v
ed schema material to w
o
rldbas
e
2
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
a
dde
d
w
o
r
ldbase security warning
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
m
ore revisions
abo
u
t downloading tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
revis
i
ons to
d
own
l
oad=True section
commit
|
commitdiff
|
tree
2009-09-03
Ch
r
istopher
Lee
add
e
d depende
n
cy
s
ection in worl
d
base
.
rst tutoria
l
commit
|
commitdiff
|
tree
2009-09-03
Christopher
L
ee
ad
d
ed worldbase
.
dir() tutorial
commit
|
commitdiff
|
tree
2009-09-03
C
h
risto
p
her L
e
e
adde
d
i
n
tro sec
t
ion to worldbase
.
rst tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christop
h
e
r
Lee
a
dde
d
Purpose to
a
lignment
.
rst
commit
|
commitdiff
|
tree
2009-09-03
C
h
r
i
stoph
e
r Lee
more little ch
a
nges to annotation
2
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Chr
i
stoph
e
r Lee
added Purp
o
se and intro to annotations2
.
rst
commit
|
commitdiff
|
tree
2009-09-03
Christopher Lee
move
d
n
e
w ba
s
i
c
tutorials
to top of
g
uide list
commit
|
commitdiff
|
tree
2009-09-03
Christopher
L
e
e
minor fix to
d
b
_basic
.
rs
t
commit
|
commitdiff
|
tree
2009-09-03
C
h
ristopher Lee
u
p
dates to
r
efe
r
e
n
ce/sql
g
rap
h
.
r
s
t
docs
commit
|
commitdiff
|
tree
2009-09-03
Chri
s
topher Lee
a
d
ded SQL saving section to
d
b tutorial
commit
|
commitdiff
|
tree
2009-09-03
Chris
t
opher Lee
basic database tutorial
commit
|
commitdiff
|
tree
2009-09-03
Christopher
L
ee
added back __len__()
t
o S
Q
LTableBase
.
H
o
w in heck
.
.
.
commit
|
commitdiff
|
tree
2009-09-03
Christopher L
e
e
adde
d
section on Pre
f
ixU
n
ionD
i
ct
commit
|
commitdiff
|
tree
2009-09-02
Chr
i
s
t
opher L
e
e
a
d
ded
s
ection on
plugging in your own se
q
uence parser
commit
|
commitdiff
|
tree
2009-09-02
Christop
h
e
r
Lee
moved old material out to comp
g
enom
i
c
s
.
rs
t
commit
|
commitdiff
|
tree
2009-09-02
Christopher
L
ee
som
e
m
i
nor se
q
ue
n
ce tutorial revisions
commit
|
commitdiff
|
tree
2009-09-02
C
hristopher L
e
e
added tut
o
r
i
a
l
sec
t
ion
o
n accessing sequence
d
a
t
aba
s
e
.
.
.
commit
|
commitdiff
|
tree
2009-09-02
Chri
s
topher Lee
split
up
bullet points
t
o integr
a
te into
t
he code example
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
revis
e
d sequence t
u
torial intro (firs
t
p
a
r
t
)
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
Mer
g
e commit 'remotes/ctb/xmlrpc_tu
t
orial' into tutoria
l
commit
|
commitdiff
|
tree
2009-09-02
Christo
p
her Lee
M
e
rg
e
comm
i
t 'remot
e
s/ctb/doc_a
l
i
gnment
'
into tutorial
commit
|
commitdiff
|
tree
2009-09-02
Christopher Lee
re
v
ised
gff3 c
o
de
commit
|
commitdiff
|
tree
2009-09-02
C
hri
s
t
opher
L
ee
added G
F
F3 ex
a
mple of gene building
commit
|
commitdiff
|
tree
2009-09-01
Christopher
L
e
e
Merge comm
i
t 'r
e
mot
e
s/mksz
u
ba/xml
r
p
c
_tutorial
'
into
.
.
.
commit
|
commitdiff
|
tree
2009-09-01
C
hristopher
L
ee
Merge commit 'remo
t
es/ctb/doc_annotation
s
'
into tutorial
commit
|
commitdiff
|
tree
2009-09-01
Christ
o
pher Lee
extracted
m
a
te
r
ial for separate database tutorial
commit
|
commitdiff
|
tree
2009-08-29
Christo
p
her
Lee
remov
e
d unnecessary
stat and shutil import fr
o
m
setup
.
py
commit
|
commitdiff
|
tree
2009-08-14
Christoph
e
r Lee
fixe
d
eas
y
_install bu
g
by protec
t
ing co
o
rdin
a
t
o
r
.
ResourceFil
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Ch
r
istopher
Lee
fixed
bla
s
t_test: renamed
test_seq_with
o
ut_db() to
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Christopher Lee
Me
r
g
e
c
ommit 'remotes/ctb
/
minor_
f
ixes' int
o
m
i
no
r
_fi
x
e
s
commit
|
commitdiff
|
tree
2009-08-04
Chri
s
topher Lee
fix port passing
in t
e
stutil
.
TestXML
R
PCSer
v
er
commit
|
commitdiff
|
tree
2009-08-04
Chri
s
topher Lee
use
p
a
ir_identity_tuple() for
blast_test for
m
atting
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Chri
s
t
opher Lee
added
B
la
s
tBase
.
tearDown
(
)
t
o
close seqdbs as they
.
.
.
commit
|
commitdiff
|
tree
2009-08-04
Chris
t
opher
Lee
Merge commit 'remote
s
/mkszuba/
d
o
c
_ma
k
e'
commit
|
commitdiff
|
tree
2009-08-04
Christopher Lee
M
er
g
e commit 'remotes/mkszuba/rpm'
commit
|
commitdiff
|
tree
2009-07-29
C
h
r
i
stopher Lee
got rid o
f
BlastMappin
g
.
warn_about_se
l
f_matches()
commit
|
commitdiff
|
tree
2009-07-29
Ch
r
istopher Lee
chan
g
ed NLMSA pairwiseMode t
o
allow reporting
o
f se
l
f
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
Christo
p
h
er Lee
Merge co
m
mit 'remot
e
s
/
mkszuba/debian'
commit
|
commitdiff
|
tree
2009-07-29
Christopher Lee
retry reading po
r
t_file in TestXMLR
P
C
Ser
v
e
r several
.
.
.
commit
|
commitdiff
|
tree
2009-07-29
Christopher Lee
added comm
e
nts to proc
e
ss_blast()
commit
|
commitdiff
|
tree
2009-07-29
Christopher Lee
fix problem introduce
d
in
p
r
oc
e
ss_blast() by c
o
mmit
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Chri
s
topher Lee
handle
m
issi
n
g WINDIR case on Windows
commit
|
commitdiff
|
tree
2009-07-28
Christopher Lee
added SeqTranslator
.
_
_repr__()
commit
|
commitdiff
|
tree
2009-07-28
Christop
h
er Lee
Me
r
ge commit 'remotes/ctb/simpleframe_fo
r
matdb_clea
n
up
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Christopher
L
ee
Mer
g
e br
a
nc
h
'
m
as
t
er' in
t
o simplefra
m
e
commit
|
commitdiff
|
tree
2009-07-28
Chr
i
stopher Lee
added Se
q
Tra
n
slator
.
iter_
f
rames() met
h
od, used
in
BlastxM
a
p
p
.
.
.
commit
|
commitdiff
|
tree
2009-07-28
Christopher
L
ee
M
e
rge commi
t
'remo
t
es/ctb
/
simpleframe_doc_align' int
o
.
.
.
commit
|
commitdiff
|
tree
2009-07-27
Christopher Lee
p
rotect 2 more tests usi
n
g blast_enabled()
c
hec
k
commit
|
commitdiff
|
tree
2009-07-27
Christophe
r
Le
e
f
i
xed
s
y
ntax error
commit
|
commitdiff
|
tree
2009-07-27
Chr
i
stopher Lee
added
python 2
.
3 c
o
de for
F
ilePopen
t
o
de
t
ect
bad exit
.
.
.
commit
|
commitdiff
|
tree
2009-07-27
Ch
r
istopher Lee
Merge bran
c
h 'no_edg
e
_db'
commit
|
commitdiff
|
tree
2009-07-27
C
h
r
ist
o
phe
r
Lee
Merge branc
h
'silencio'
commit
|
commitdiff
|
tree
2009-07-27
Christ
o
p
h
er Lee
added sh
o
wFormatdb
M
essa
g
es option
to
B
l
a
s
tMapp
i
ng
commit
|
commitdiff
|
tree
2009-07-25
Chri
s
t
oph
e
r Lee
added support for no-ed
g
eDB case in mapping
.
G
raph:
.
.
.
commit
|
commitdiff
|
tree
2009-07-23
Chri
s
t
o
pher L
e
e
added o
p
tion
for latex
o
utput of
the refer
e
nc
e
manual
commit
|
commitdiff
|
tree
2009-07-16
Christopher Lee
Mer
g
e commit
'remote
s
/ctb/blast
_
test_rc' in
t
o simpleframe
commit
|
commitdiff
|
tree
2009-07-16
Christop
h
er Lee
ad
d
ed more docstrin
g
s
for bl
a
st
.
py
commit
|
commitdiff
|
tree
2009-07-16
Chr
i
stopher Le
e
rem
o
ved old Blas
t
xMapping code
commit
|
commitdiff
|
tree
2009-07-16
Chr
i
s
topher Lee
ne
w
, g
r
eatly simplified Blas
t
x
M
apping
commit
|
commitdiff
|
tree
2009-07-16
Christo
p
he
r
Lee
switched test_blastx_serv
e
r to use new Tr
a
ns
l
ationDB
.
.
.
commit
|
commitdiff
|
tree
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