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Merge remote-tracking branch 'origin/master'
2014-12-12
Stepha
n
S
aalfeld
Merg
e
remote-t
r
ackin
g
branch 'origin/master'
commit
|
commitdiff
|
tree
2014-12-12
Steph
a
n Saalfeld
bump
to new development cycle
commit
|
commitdiff
|
tree
2014-12-12
S
t
ephan Saalfel
d
reprodu
c
ible
b
uild pom-trakem2-1
.
1
.
0
commit
|
commitdiff
|
tree
2014-12-12
Stephan Saalfeld
M
erge
b
ranc
h
'm
a
ste
r
' of githu
b
.
co
m
:
t
rakem2/Tr
a
kEM2
commit
|
commitdiff
|
tree
2014-11-12
S
te
p
h
an Sa
a
lfeld
U
p
date README
commit
|
commitdiff
|
tree
2014-11-12
Ste
p
han Saalfeld
Updat
e
RE
A
DME
commit
|
commitdiff
|
tree
2014-11-07
St
e
p
h
an S
a
alfeld
Merge branc
h
'maste
r
' into coordXfmFix
commit
|
commitdiff
|
tree
2014-11-07
Stephan Saalfeld
Me
r
ge remot
e
-tracking bran
c
h
'ori
g
in/intensity-transf
o
r
m
'
commit
|
commitdiff
|
tree
2014-10-04
Step
h
a
n
Saalfeld
added RobustNormalizedLoca
l
Cont
r
ast
F
ilter, fast and
.
.
.
commit
|
commitdiff
|
tree
2014-10-04
S
t
ephan Saalf
e
ld
C
h
a
n
ged default block r
a
dius
i
n NormalizeLocalContrast
.
.
.
commit
|
commitdiff
|
tree
2014-10-02
Stephan Saalf
e
l
d
auto-rem
o
ved some train
i
ng w
h
itesp
a
ces
commit
|
commitdiff
|
tree
2014-10-02
S
t
e
p
h
a
n
S
aalfel
d
adde
d
run method that do
e
s not n
e
ed
a
worker for ea
s
ier
.
.
.
commit
|
commitdiff
|
tree
2014-10-02
St
e
phan Saa
l
feld
auto-removed s
o
me trai
l
i
n
g wh
i
te
s
paces
commit
|
commitdiff
|
tree
2014-10-02
St
e
phan Saalfe
l
d
parall
e
liz
e
d int
e
rsectio
n
tes
t
s for pairOverlap
p
ing
T
iles
commit
|
commitdiff
|
tree
2014-10-02
Stepha
n
Saalfeld
auto-
f
in
a
lize cons
t
ant proper
t
ies and parameters in
.
.
.
commit
|
commitdiff
|
tree
2014-10-02
Stephan
S
a
a
lfeld
threadsafe Utils
.
e
n
sure(File)
commit
|
commitdiff
|
tree
2014-06-06
S
tephan
S
aa
l
feld
fixed bug in generat
i
o
n
of alphamasks
commit
|
commitdiff
|
tree
2014-06-05
Stephan Saalfeld
e
xtern
a
l
ized Distort
i
onCorrection
.
run to
e
nable calli
n
g
.
.
.
commit
|
commitdiff
|
tree
2014-06-05
Steph
a
n S
a
al
f
eld
E
c
lipse autu-
c
o
smetics in
D
istortionCorrection
commit
|
commitdiff
|
tree
2014-05-19
Stephan
S
aalfeld
Merge branch
'master' int
o
inten
s
ity-t
r
ansfor
m
commit
|
commitdiff
|
tree
2014-05-19
Stephan Sa
a
lfeld
use standard writer for coord
i
nat
e
trans
f
or
m
s
commit
|
commitdiff
|
tree
2014-05-19
Stephan Saalfel
d
depend on ja
v
a
x
.
media for jai
commit
|
commitdiff
|
tree
2014-05-19
Stephan
Saa
l
feld
a
d
d
e
d met
h
od
s
f
o
r
d
owns
a
mpli
n
g
m
ore than one level
commit
|
commitdiff
|
tree
2013-10-10
Stephan Saalfeld
replac
e
d plugins
.
conf
i
g
w
ith the Fiji version
commit
|
commitdiff
|
tree
2013-09-20
Steph
a
n Saalfeld
M
e
rge br
a
n
ch 'master' of ssh
:
//repo
.
or
.
cz/srv/gi
t
/t
r
ake
m
2
commit
|
commitdiff
|
tree
2013-09-19
Stephan Saalfe
l
d
Merge
branch '
m
aster'
of
ssh://repo
.
or
.
cz
/
srv/gi
t
/
trake
m
2
commit
|
commitdiff
|
tree
2013-09-19
St
e
phan Saalf
e
ld
Paralle
l
p
air
O
v
e
rlappingT
i
l
es d
i
d not work and
r
eporte
d
.
.
.
commit
|
commitdiff
|
tree
2013-09-16
Step
h
an Saalfeld
Merge branch 'm
a
ster' of ssh:/
/
r
e
p
o
.
or
.
cz
/
srv/git/tr
a
kem2
commit
|
commitdiff
|
tree
2013-09-16
Stephan Saal
f
eld
re-a
d
de
d
legacy optimizer f
o
r spring m
e
s
hes, thi
s
w
o
u
l
d
.
.
.
commit
|
commitdiff
|
tree
2013-09-16
S
t
eph
a
n Saalfeld
T2-
N
IT/pom
.
xml can inhe
r
i
t
version number from par
e
nt
commit
|
commitdiff
|
tree
2013-08-14
Step
h
an Sa
a
lfeld
added
m
issing dependen
c
i
e
s
t
o java3d c
o
re-utils and
.
.
.
commit
|
commitdiff
|
tree
2013-08-14
Steph
a
n
Saalfeld
set
pare
n
t pom
o
f pom-trake
m
2 to pom-fi
j
i
.
2
.
0
.
0-SNAPSHOT
commit
|
commitdiff
|
tree
2013-08-12
Stephan S
a
alfeld
Me
r
ge bran
c
h 's
p
ring-m
e
sh2' of ssh://repo
.
or
.
c
z
/srv
.
.
.
commit
|
commitdiff
|
tree
2013-08-12
St
e
phan Saalfeld
Merge branch 'maste
r
' into
s
pri
n
g-mesh2
commit
|
commitdiff
|
tree
2013-08-12
St
e
phan Saalfeld
rais
e
d mpicbg de
p
endency version to 0
.
6
.
1-SNAPSHOT
commit
|
commitdiff
|
tree
2013-08-12
Stephan Saal
f
e
l
d
raised
d
epende
n
cy to Simpl
e
_Neurite_Tra
c
e
r
to 2
.
0
.
2
commit
|
commitdiff
|
tree
2013-08-12
Stephan Saalfeld
M
erge
b
ra
n
ch 'maste
r
' into spring-mesh2
commit
|
commitdiff
|
tree
2013-08-12
Stephan Saal
f
eld
added comments
a
nd aut
o
-f
i
nali
z
e in DistortionCorrect
i
on/NLT
commit
|
commitdiff
|
tree
2013-08-12
Steph
a
n Sa
a
lfel
d
a
d
ded mpic
b
g
.
v
e
r
sion as maven property,
commit
|
commitdiff
|
tree
2013-05-06
Stephan Saal
f
eld
tra
c
k move of the imglib1 dependency
commit
|
commitdiff
|
tree
2013-04-22
Stephan
S
aalfeld
Merge branch 'mast
e
r' into
s
p
r
ing
-
mesh2
commit
|
commitdiff
|
tree
2013-03-05
S
t
ep
h
an Saal
f
eld
Mer
g
e branch 'master'
into
spri
n
g-mes
h
2
commit
|
commitdiff
|
tree
2013-01-18
Stephan Saalfeld
u
s
e
arr
a
ylist w
h
ere a
r
raylists are r
e
turned
commit
|
commitdiff
|
tree
2013-01-16
Stephan Saalfeld
adju
s
t
mpicbg spring-mesh2
which needs
less dam
p
ing
commit
|
commitdiff
|
tree
2013-01-11
Stephan Saalfeld
Fixed
b
ug in
Patch
.
getF
u
l
l
Coordina
t
e
T
ransf
o
rm that
.
.
.
commit
|
commitdiff
|
tree
2013-01-11
Stephan Saalfeld
Cha
n
ge
d
fix
e
dPa
t
ches/Ti
l
e
s
input c
o
llection to Set
.
.
.
commit
|
commitdiff
|
tree
2013-01-11
S
tephan
Saalfeld
Pair construc
t
o
r
h
as to be public
commit
|
commitdiff
|
tree
2013-01-10
Stephan Saalfeld
forgot to set
is
A
ligned flag i
n
elastic layer alignment
.
.
.
commit
|
commitdiff
|
tree
2013-01-09
S
t
ephan Saa
l
fe
l
d
ela
s
tic monta
g
e
para
m
must be public
commit
|
commitdiff
|
tree
2013-01-07
Stephan Saalfeld
added Patch
.
getFullC
o
rdinateTransfor
m
() which generat
e
s a
commit
|
commitdiff
|
tree
2013-01-07
Stephan
Sa
a
lfeld
* re
m
oved
i
s
Aligned
from Abstract
Para
m
cla
s
s
commit
|
commitdiff
|
tree
2013-01-05
S
tephan Saalfeld
87
7
: it is l
e
gal for la
y
e
rT
h
ing
t
o be
n
u
l
l
commit
|
commitdiff
|
tree
2012-12-21
Ste
p
ha
n
Saalfeld
Correc
t
ed
s
ev
e
ral long-stan
d
in
g
issues
with SIF
T
-linear a
n
d
commit
|
commitdiff
|
tree
2012-12-19
Stepha
n
Saa
l
feld
RegularizedLayerAlignment go
t
more
f
l
exible
A
PI methods
a
nd
commit
|
commitdiff
|
tree
2012-12-19
St
e
phan Saalfe
l
d
cleari
n
g
c
a
che
i
n layer alignmen
t
m
ust b
e
d
e
f
ault true
commit
|
commitdiff
|
tree
2012-12-19
S
t
eph
a
n
S
a
alf
e
ld
pr
i
nt optimize
r
results and do
n
ot print "match
i
ng
.
.
.
commit
|
commitdiff
|
tree
2012-12-19
Stephan Saal
f
eld
do not r
e
move empty la
y
ers in
layer alignment
commit
|
commitdiff
|
tree
2012-11-07
S
tephan Saalfeld
fixed
v
ersion numbe
r
of mpicbg dependency
commit
|
commitdiff
|
tree
2012-11-07
S
t
ephan Saalfeld
fixe
d
merge e
r
ror: moved RobustNorm
a
lizeLocalContrast
.
.
.
commit
|
commitdiff
|
tree
2012-09-01
St
e
pha
n
S
aal
f
e
l
d
m
u
lti-threaded R
o
bustNormalizeLocalContr
a
st main body
commit
|
commitdiff
|
tree
2012-09-01
S
tephan Saalfeld
Removed DisplayC
a
n
v
as
.
s
etDrawingColor(int,int,boolean
.
.
.
commit
|
commitdiff
|
tree
2012-08-31
Stepha
n
Saalfeld
Merge
b
ranch 'master' of ssh://repo
.
or
.
cz/sr
v
/git/trak
e
m2
commit
|
commitdiff
|
tree
2012-08-31
Stephan
S
aalf
e
ld
added
e
x
p
e
r
imental local contrast enhancer Ro
b
ustNorm
a
lizeLo
.
.
.
commit
|
commitdiff
|
tree
2012-06-29
Stephan Saalfel
d
removed o
b
solete c
h
o
i
ce from align
l
ayers dialog
commit
|
commitdiff
|
tree
2012-06-26
Stephan Saalfe
l
d
s
plit elastic montage d
i
alo
g
for blo
c
k
matching and use
commit
|
commitdiff
|
tree
2012-06-26
S
tephan Saalfeld
Mer
g
e
b
r
anch 'maste
r
' of ssh://repo
.
or
.
cz/srv
/
git/trakem2
commit
|
commitdiff
|
tree
2012-06-26
Steph
a
n Saalfeld
u
se and
d
o not
i
gnore
alpha
i
n helper meth
o
d
commit
|
commitdiff
|
tree
2012-06-21
Steph
a
n
S
aa
l
f
e
ld
use t
h
e
new sequentia
l
dialog
s
in "montage
"
for a selection
.
.
.
commit
|
commitdiff
|
tree
2012-06-20
Step
h
an Saalfeld
M
erge branch 'ma
s
ter' o
f
ssh://repo
.
o
r
.
cz/srv/git/trakem2
commit
|
commitdiff
|
tree
2012-06-20
Stephan Saa
l
f
e
l
d
f
i
xed range
c
heck in layer alignmen
t
commit
|
commitdiff
|
tree
2012-06-14
St
e
phan Saalfeld
fix
e
d con
d
i
t
i
on ch
e
ck
i
n Align Laye
r
s for regulariz
a
tion
.
.
.
commit
|
commitdiff
|
tree
2012-06-14
Steph
a
n Saalfeld
Merge branch
'
master' into regu
l
ar
i
zed-
a
ffin
e
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saal
f
eld
do not consider disconne
c
t
ed tiles
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saalfeld
Mer
g
e branch 'regulari
z
ed-affine' of ss
h
:
/
/
repo
.
or
.
.
.
commit
|
commitdiff
|
tree
2012-06-08
S
teph
a
n
S
aalfeld
pre-align graph
s
and match
only
overl
a
pping tile
s
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saal
f
e
l
d
pre-al
i
g
n graphs and match only ov
e
rla
p
ping tiles
commit
|
commitdiff
|
tree
2012-06-08
Stephan
S
aalfeld
ini
t
ialize
Tile
model
s
and not only patch
e
s in alignGr
a
phs
commit
|
commitdiff
|
tree
2012-06-08
Stepha
n
Saa
l
feld
changed alignGr
a
phs i
n
p
ut collections fro
m
Se
t
to Iterable
commit
|
commitdiff
|
tree
2012-06-08
St
e
phan
Saalfeld
make
sure that static
parameters
d
o not ov
e
rride e
a
c
h
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Ste
p
han Saalfeld
rem
o
v
e s
p
urious import
commit
|
commitdiff
|
tree
2012-06-05
Step
h
an S
a
a
l
f
eld
work
a
round Oracle javac g
e
nerics issue
commit
|
commitdiff
|
tree
2012-06-05
Stepha
n
Saalfeld
multi-layer-
m
osaic uses
P
a
r
am/Par
a
mOpt
i
mize
.
s
etup(String
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Stephan Sa
a
lfeld
montag
e
layers uses ParamO
p
timize
.
s
e
tup inst
e
ad of
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Stephan S
a
alfeld
d
o
not fix a random t
i
le
i
f none is fix
e
d
commit
|
commitdiff
|
tree
2012-05-29
Stephan Saa
l
f
e
ld
Condensed
.
m
a
ilmap
commit
|
commitdiff
|
tree
2012-05-29
Stephan
Saalfeld
Added
.
mailmap
commit
|
commitdiff
|
tree
2012-05-21
S
t
eph
a
n Saalfel
d
M
erg
e
branch
'
m
aster' in
t
o
regularized-a
f
fi
n
e
commit
|
commitdiff
|
tree
2012-05-21
Stephan Saalfeld
adde
d
*None*
f
ield to layer
ran
g
e reference
s
election
commit
|
commitdiff
|
tree
2012-05-21
Step
h
an Saalfeld
sp
l
it Ali
g
n
.
ParamOptimize dialogs in piec
e
s that fit
.
.
.
commit
|
commitdiff
|
tree
2012-05-21
Stephan Saalf
e
ld
add
e
d Gene
r
icAffineTile2D
commit
|
commitdiff
|
tree
2012-05-21
S
tephan
Saalfel
d
gen
e
r
a
li
z
ed AbstractAffineTile2D
gener
i
c param
e
ter
commit
|
commitdiff
|
tree
2012-05-15
Stephan
Saalfeld
track refac
t
oring in mpicbg
.
commit
|
commitdiff
|
tree
2012-05-09
Stephan Saalfeld
added
re
g
ularized affine
layer
a
lignment,
commit
|
commitdiff
|
tree
2012-03-28
Steph
a
n
Saalfeld
fixed create
I
mage(): use premulti
p
lie
d
ra
s
ter
commit
|
commitdiff
|
tree
2012-03-27
Stephan S
a
alfeld
do not
print
t
he mipma
p
scale
commit
|
commitdiff
|
tree
2012-03-27
Step
h
an S
a
alfeld
for now,
do not
u
se pr
e
-
m
ultipl
i
ed alpha sin
c
e
i
t do
e
s
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stephan S
a
al
f
eld
Fix
e
d wrong pa
i
ntin
g
of
P
at
c
he
s
wh
e
n
using a downsampler
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Ste
p
han Saalfeld
Downsam
p
lerMipMaps now consist
e
ntly uses combined downsampli
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
S
t
ephan
S
aalfeld
f
i
xed Do
w
nsa
m
ple
r
MipMap
s
blending merged a
l
ph
a
into
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
S
tepha
n
Saalfeld
Downsampler test stil
l
s
h
ows it being signi
f
i
c
a
ntly
.
.
.
commit
|
commitdiff
|
tree
next