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auto-removed some training whitespaces
2014-10-02
S
tephan Saalfeld
auto-rem
o
ve
d
s
o
me
t
raining
w
h
i
tespac
e
s
commit
|
commitdiff
|
tree
2014-10-02
Stephan Saalfeld
added run method that
d
o
es not
need a worker
for easier
.
.
.
commit
|
commitdiff
|
tree
2014-10-02
St
e
phan Saalfeld
auto-rem
o
ved some trail
i
n
g
whitespace
s
commit
|
commitdiff
|
tree
2014-10-02
S
t
e
p
han Saalf
e
ld
parall
e
liz
e
d interse
c
tion t
e
st
s
fo
r
p
a
irOverlappingTiles
commit
|
commitdiff
|
tree
2014-10-02
Steph
a
n Saalfeld
auto-fi
n
alize co
n
stant properties and paramete
r
s in
.
.
.
commit
|
commitdiff
|
tree
2014-10-02
Step
h
a
n Saalfeld
th
r
eadsafe Utils
.
e
nsure(File)
commit
|
commitdiff
|
tree
2014-06-06
Stephan Sa
a
lfeld
fixed bu
g
in gen
e
r
a
tion
of alphamask
s
commit
|
commitdiff
|
tree
2014-06-05
Stephan Saal
f
eld
extern
a
lize
d
DistortionCorre
c
tion
.
run to
e
nable calling
.
.
.
commit
|
commitdiff
|
tree
2014-06-05
S
tepha
n
Saalfeld
Eclips
e
autu-cos
m
etics
in DistortionCo
r
rection
commit
|
commitdiff
|
tree
2014-05-19
S
t
ephan
Saalf
e
ld
Merg
e
b
ranch 'master
'
into intensity-tr
a
nsform
commit
|
commitdiff
|
tree
2014-05-19
Stephan Saalfeld
us
e
st
a
n
dard
w
r
iter
for c
o
ordinatetran
s
for
m
s
commit
|
commitdiff
|
tree
2014-05-19
S
te
p
h
a
n
S
aalfel
d
d
e
p
end on javax
.
media
for ja
i
commit
|
commitdiff
|
tree
2014-05-19
Stepha
n
Saa
l
feld
added
m
ethods for dow
n
sampling more than one level
commit
|
commitdiff
|
tree
2013-10-10
Step
h
an Saalfeld
replaced plu
g
i
n
s
.
config
w
ith the Fiji version
commit
|
commitdiff
|
tree
2013-09-20
Stephan
S
aalfeld
Me
r
ge branch
'
master' of ssh://repo
.
or
.
c
z/srv/git/trak
e
m2
commit
|
commitdiff
|
tree
2013-09-19
Stephan S
a
alfeld
M
erg
e
bran
c
h
'maste
r
' of ssh://r
e
p
o
.
or
.
cz/srv/git/trakem
2
commit
|
commitdiff
|
tree
2013-09-19
Stephan Saalfel
d
P
aral
l
el p
a
irO
v
erl
a
pp
i
ngTiles
d
id
not
work
a
nd
rep
o
rted
.
.
.
commit
|
commitdiff
|
tree
2013-09-16
S
t
ephan Saalfel
d
Me
r
g
e
branch
'
master' of ssh://
r
epo
.
or
.
c
z/srv/gi
t
/trak
e
m
2
commit
|
commitdiff
|
tree
2013-09-16
S
t
ephan
Saalfel
d
re-added lega
c
y
optimizer for spring m
e
shes, this would
.
.
.
commit
|
commitdiff
|
tree
2013-09-16
Stephan
Saalfeld
T2-NIT/p
o
m
.
xml can inherit versio
n
number from pare
n
t
commit
|
commitdiff
|
tree
2013-08-14
Stephan
S
aalf
e
ld
added missing d
e
pendenc
i
es to
j
av
a
3d co
r
e-utils and
.
.
.
commit
|
commitdiff
|
tree
2013-08-14
Stephan Saalfeld
set parent pom of pom-trakem2
t
o
p
o
m
-
f
i
ji
.
2
.
0
.
0-S
N
APSHOT
commit
|
commitdiff
|
tree
2013-08-12
S
t
ephan S
a
a
l
feld
Merge bra
n
ch
'
s
pring-mesh2' of ssh:
/
/r
e
po
.
or
.
cz/srv
.
.
.
commit
|
commitdiff
|
tree
2013-08-12
Ste
p
han Saal
f
eld
Merge bra
n
ch 'master'
i
n
to spring-mesh2
commit
|
commitdiff
|
tree
2013-08-12
Stephan
Saalf
e
l
d
r
aised mpic
b
g depende
n
cy version to 0
.
6
.
1-SNAPSHOT
commit
|
commitdiff
|
tree
2013-08-12
Ste
p
han Saalfel
d
r
a
i
s
ed dependency to Simple_Neurite_Trac
e
r to
2
.
0
.
2
commit
|
commitdiff
|
tree
2013-08-12
Ste
p
han Saal
f
eld
Merge branch '
m
aster' into spring-m
e
sh2
commit
|
commitdiff
|
tree
2013-08-12
Stephan Saalfeld
a
d
d
e
d comments and auto-final
i
ze in Dis
t
ortionCorrection/NLT
commit
|
commitdiff
|
tree
2013-08-12
Stepha
n
Saalf
e
ld
a
dded mpic
b
g
.
version as
m
aven pr
o
perty,
commit
|
commitdiff
|
tree
2013-05-06
S
tephan Saalfeld
t
rack move of t
h
e imglib1 depe
n
dency
commit
|
commitdiff
|
tree
2013-04-22
Step
h
an Sa
a
l
feld
Merge branch
'
ma
s
ter'
into sp
r
ing-me
s
h
2
commit
|
commitdiff
|
tree
2013-03-05
Stephan Saalfeld
Merge branch
'
master
'
into spring-mes
h
2
commit
|
commitdiff
|
tree
2013-01-18
Stepha
n
Saalfeld
use arr
a
y
l
i
s
t
w
h
ere arrayl
i
sts
a
re returned
commit
|
commitdiff
|
tree
2013-01-16
Stephan Saalfeld
ad
j
ust
m
p
i
cbg spring-me
s
h2
w
hi
c
h needs less damp
i
ng
commit
|
commitdiff
|
tree
2013-01-11
Stephan Saalfeld
Fixed bug i
n
Patch
.
getFull
C
oordi
n
ateTr
a
nsform that
.
.
.
commit
|
commitdiff
|
tree
2013-01-11
Stephan
S
aalfeld
Changed
fi
x
edPatches
/
Tiles in
p
ut col
l
ection to
S
et
.
.
.
commit
|
commitdiff
|
tree
2013-01-11
Ste
p
han Saalf
e
ld
Pair co
n
s
t
ructor has
t
o be public
commit
|
commitdiff
|
tree
2013-01-10
S
t
eph
a
n
S
aalfeld
forgot to set isAligned flag
i
n e
l
astic layer alignment
.
.
.
commit
|
commitdiff
|
tree
2013-01-09
Stephan
Sa
a
lfeld
elast
i
c mont
a
ge param
must be public
commit
|
commitdiff
|
tree
2013-01-07
S
tephan
S
a
alfeld
added Patch
.
ge
t
Fu
l
lCordinat
e
Transfor
m
(
)
w
hich gene
r
a
t
es a
commit
|
commitdiff
|
tree
2013-01-07
Stephan Saalfeld
* removed
i
s
A
ligned from Abstract Param class
commit
|
commitdiff
|
tree
2013-01-05
Stephan Saalfeld
877: it
i
s
legal
f
or layerT
h
ing to
b
e null
commit
|
commitdiff
|
tree
2012-12-21
Stephan
S
a
a
lfeld
Correc
t
ed
se
v
eral
long-standi
n
g issues with S
I
FT-lin
e
a
r and
commit
|
commitdiff
|
tree
2012-12-19
S
t
eph
a
n Saa
l
feld
RegularizedL
a
y
erAlignment got more fl
e
xibl
e
API m
e
thods and
commit
|
commitdiff
|
tree
2012-12-19
Steph
a
n S
a
alfeld
cleari
n
g cache in
laye
r
alignment must be default true
commit
|
commitdiff
|
tree
2012-12-19
Steph
a
n Saalfeld
pr
i
nt op
t
imizer results an
d
do not print "matchin
g
.
.
.
commit
|
commitdiff
|
tree
2012-12-19
S
tephan Saa
l
fel
d
do not re
m
ov
e
empty la
y
ers in l
a
yer alignme
n
t
commit
|
commitdiff
|
tree
2012-11-07
S
te
p
han
S
a
alfeld
fixed vers
i
on
n
umber
o
f mpicbg dep
e
ndency
commit
|
commitdiff
|
tree
2012-11-07
Stephan
Saalfeld
fixed m
e
rge
error: moved
RobustNormalizeLoc
a
lContrast
.
.
.
commit
|
commitdiff
|
tree
2012-09-01
S
t
ep
h
an
S
aalfeld
multi-
t
h
readed Robu
s
tNormalizeLocalC
o
nt
r
as
t
main bod
y
commit
|
commitdiff
|
tree
2012-09-01
Stephan Saalfeld
R
e
moved DisplayCanvas
.
setDrawingColor(in
t
,int,boolean
.
.
.
commit
|
commitdiff
|
tree
2012-08-31
Stephan Saalfeld
Merge branch 'ma
s
t
e
r' of
ssh://repo
.
or
.
cz/srv/git/tr
a
kem2
commit
|
commitdiff
|
tree
2012-08-31
S
t
ephan Saalf
e
ld
added e
x
per
i
me
n
tal local contr
a
st enhancer Robus
t
NormalizeLo
.
.
.
commit
|
commitdiff
|
tree
2012-06-29
Stepha
n
Saalfe
l
d
removed ob
s
olete cho
i
ce
from align lay
e
r
s
dialog
commit
|
commitdiff
|
tree
2012-06-26
Stepha
n
Saalfeld
split
e
lastic monta
g
e dia
l
og for bl
o
ck
m
atching and use
commit
|
commitdiff
|
tree
2012-06-26
Stephan Saalfeld
Mer
g
e branch 'mast
e
r' of ssh://re
p
o
.
or
.
cz/srv/g
i
t
/
trak
e
m
2
commit
|
commitdiff
|
tree
2012-06-26
Stephan
Saalfeld
use and do not ignore alpha
i
n helper method
commit
|
commitdiff
|
tree
2012-06-21
S
t
ephan
S
aal
f
eld
use the
n
ew sequ
e
ntial
dialogs in "
m
ontage
"
for a selection
.
.
.
commit
|
commitdiff
|
tree
2012-06-20
Stephan Saalfeld
Merge bran
c
h
'
m
aster' of ssh:
/
/repo
.
or
.
cz/srv/git/trakem2
commit
|
commitdiff
|
tree
2012-06-20
Ste
p
han
S
aal
f
eld
fixed range check i
n
layer alignment
commit
|
commitdiff
|
tree
2012-06-14
Stephan Saalfeld
fixe
d
cond
i
ti
o
n check in
A
li
g
n
L
ayers
for regu
l
a
r
i
zat
i
o
n
.
.
.
commit
|
commitdiff
|
tree
2012-06-14
Stephan Saa
l
feld
Merg
e
b
ranch 'master' into
regularized-affine
commit
|
commitdiff
|
tree
2012-06-08
Step
h
an Saalfeld
d
o
n
o
t consider disc
o
nne
c
ted
tiles
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saalfeld
Merge branch
're
g
ularized-affi
n
e' of ss
h
:
/
/repo
.
o
r
.
.
.
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saalfeld
pre-align
g
raphs
a
nd matc
h
onl
y
ove
r
lapping tiles
commit
|
commitdiff
|
tree
2012-06-08
Ste
p
han
Saalf
e
l
d
pre-align graphs a
n
d match only overlappin
g
tiles
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saalfe
l
d
initialize
T
ile model
s
and not only patche
s
in alignGraphs
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saalfeld
change
d
alignGraphs input collectio
n
s from Set to Iterab
l
e
commit
|
commitdiff
|
tree
2012-06-08
Step
h
an Saalfeld
ma
k
e sure that static pa
r
amet
e
rs d
o
not
override each
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Step
h
an Saalfeld
remove spurious import
commit
|
commitdiff
|
tree
2012-06-05
Ste
p
h
a
n Saalfeld
w
o
rkaround
O
racle javac generics issu
e
commit
|
commitdiff
|
tree
2012-06-05
Stephan Saalfeld
m
u
l
ti-layer-m
o
saic uses Param/Para
m
Optimize
.
setup(String
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Stephan Saalfeld
montage layers uses Par
a
mOptimize
.
setup instead of
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Stephan Saalfeld
do not fix a
r
andom
t
il
e
if n
o
n
e
i
s
fixe
d
commit
|
commitdiff
|
tree
2012-05-29
Ste
p
han Sa
a
lfeld
C
ondense
d
.
mailmap
commit
|
commitdiff
|
tree
2012-05-29
Stephan
S
aal
f
eld
A
d
ded
.
mailm
a
p
commit
|
commitdiff
|
tree
2012-05-21
St
e
p
h
a
n
Saalfeld
Merge bran
c
h 'master' into
r
egu
l
ari
z
e
d-aff
i
ne
commit
|
commitdiff
|
tree
2012-05-21
St
e
phan
Saalfeld
ad
d
e
d
*
None* f
i
eld
to layer ran
g
e reference sel
e
ction
commit
|
commitdiff
|
tree
2012-05-21
S
t
ephan Sa
a
lfeld
sp
l
it Align
.
Param
O
ptimize
d
i
a
log
s
i
n
pieces
that fit
.
.
.
commit
|
commitdiff
|
tree
2012-05-21
Ste
p
han
Saalfeld
added G
e
nericAffineTile
2
D
commit
|
commitdiff
|
tree
2012-05-21
Stephan Saalf
e
l
d
generalized Abst
r
ac
t
Af
f
ine
T
ile2D g
e
neri
c
p
a
rameter
commit
|
commitdiff
|
tree
2012-05-15
St
e
phan Saal
f
eld
track re
f
actoring
i
n mpicbg
.
commit
|
commitdiff
|
tree
2012-05-09
St
e
phan Saalfeld
added regul
a
riz
e
d
a
ff
i
ne layer alignmen
t
,
commit
|
commitdiff
|
tree
2012-03-28
Stephan Saalfeld
fixed c
r
ea
t
eImage(): us
e
pre
m
u
l
tip
l
ied ra
s
ter
commit
|
commitdiff
|
tree
2012-03-27
Step
h
an Saal
f
eld
d
o
not p
r
int
t
he
mipmap scale
commit
|
commitdiff
|
tree
2012-03-27
Stephan Saal
f
el
d
for
now, do not use pre
-
m
u
l
tiplied alpha since it d
o
es
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stepha
n
Saa
l
feld
F
i
xed wrong painti
n
g of P
a
tches
w
hen using a downsamp
l
er
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Step
h
an Saa
l
feld
Downsam
p
lerMipMaps no
w
c
o
n
sist
e
ntly uses c
o
mbin
e
d downsamp
l
i
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Steph
a
n
Saalfeld
fixed D
o
wnsamplerMipMap
s
blending m
e
rged alph
a
into
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
S
t
e
phan Saalfeld
Downsampler
test still
s
hows it being significantly
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stephan
S
aa
l
feld
Fixed Dow
n
sampler: range check in byt
e
conve
r
sion was
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
S
t
ephan
S
a
alfeld
Merge branch '
i
n
tegral' of
ss
h
://r
e
po
.
o
r
.
c
z
/
s
rv/
g
it
.
.
.
commit
|
commitdiff
|
tree
2012-03-08
Stephan Sa
a
lfeld
ad
d
ed m
i
ssing package
to Fakefile
commit
|
commitdiff
|
tree
2012-03-08
Ste
p
h
a
n
Saalfeld
M
erge
b
ranc
h
'mas
t
er
'
of ssh://repo
.
or
.
cz/srv/git/trakem
2
commit
|
commitdiff
|
tree
2012-03-08
Stephan Saalfeld
fix local sca
l
e estimate
commit
|
commitdiff
|
tree
2012-03-07
Ste
p
han Saalfeld
a
d
ded
getLocalScale(
x
,
y
) method to Patch
commit
|
commitdiff
|
tree
2012-03-07
Stephan Saa
l
feld
patch does not propagate NonInvertibleModelExcepti
o
n
.
.
.
commit
|
commitdiff
|
tree
2012-03-07
St
e
phan
Saalfe
l
d
Merge branch
'
master' of
ssh://repo
.
o
r
.
cz/srv/git/trakem2
commit
|
commitdiff
|
tree
2012-03-07
Stephan Saalfeld
added
m
ethods
t
o f
e
tch the c
l
o
s
e
st tria
n
gl
e
of a transform
.
.
.
commit
|
commitdiff
|
tree
2012-02-27
Step
h
an
Saalfeld
i
n
the middle
of
.
.
.
amend
w
ith fina
l
commi
t
commit
|
commitdiff
|
tree
next