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raised mpicbg dependency version to 0.6.1-SNAPSHOT
2013-08-12
S
tephan Saal
f
eld
raised mpi
c
bg depende
n
cy
v
ersion to 0
.
6
.
1
-
SNA
P
S
H
OT
commit
|
commitdiff
|
tree
2013-08-12
S
tephan Saalf
e
ld
raised dependency
t
o
Simple
_
Neuri
t
e_Tracer to 2
.
0
.
2
commit
|
commitdiff
|
tree
2013-05-06
St
e
p
h
an Saalfeld
trac
k
mov
e
o
f
t
h
e imglib1 dependency
commit
|
commitdiff
|
tree
2013-01-11
Stephan Saa
l
f
eld
Fixed bu
g
in Patch
.
getFullCoordinateTransfor
m
that
.
.
.
commit
|
commitdiff
|
tree
2013-01-11
Ste
p
han Saalfel
d
Change
d
fixedPatc
h
es
/
Ti
l
es input collection to
Set
.
.
.
commit
|
commitdiff
|
tree
2013-01-11
Stephan Saal
f
eld
Pa
i
r constru
c
tor
h
as to be
p
u
bl
i
c
commit
|
commitdiff
|
tree
2013-01-10
Step
h
an Saalfeld
forgot to
set isAl
i
gned f
l
ag
in el
a
stic layer alignm
e
nt
.
.
.
commit
|
commitdiff
|
tree
2013-01-09
Steph
a
n
Saalfeld
elas
t
ic mon
t
a
g
e param must be publ
i
c
commit
|
commitdiff
|
tree
2013-01-07
S
t
ephan Saalfeld
a
dded Patch
.
getFull
C
o
rdin
a
t
e
T
ransform(
)
w
h
ich generates a
commit
|
commitdiff
|
tree
2013-01-07
Stephan Saalf
e
ld
* remove
d
isAligned from A
b
stra
c
t
Pa
r
am cla
s
s
commit
|
commitdiff
|
tree
2013-01-05
Stephan Saalfeld
877:
i
t
is
l
egal for layerThing to be n
u
ll
commit
|
commitdiff
|
tree
2012-12-21
Stephan Saalfeld
Corrected
several long-standing
issues w
i
th SI
F
T-l
i
near
a
n
d
commit
|
commitdiff
|
tree
2012-12-19
Stephan
Saal
f
e
l
d
Regu
l
arizedLayerAlignment got more flexible API me
t
ho
d
s and
commit
|
commitdiff
|
tree
2012-12-19
Stephan Saalfeld
clea
r
ing c
a
che in layer alignment must be
d
ef
a
ult true
commit
|
commitdiff
|
tree
2012-12-19
Ste
p
han Saalfeld
pri
n
t optimizer
r
esults and do not print "matc
h
i
n
g
.
.
.
commit
|
commitdiff
|
tree
2012-12-19
Stephan Saal
f
eld
do not remove empty laye
r
s i
n
layer alignment
commit
|
commitdiff
|
tree
2012-11-07
Stephan Saal
f
eld
fixe
d
v
e
rsion number of mpi
c
b
g
dep
e
nd
e
n
c
y
commit
|
commitdiff
|
tree
2012-11-07
Step
h
an Saalfeld
fixed me
r
ge e
r
ror:
moved Robu
s
tNormalizeLo
c
alCo
n
trast
.
.
.
commit
|
commitdiff
|
tree
2012-09-01
S
t
eph
a
n Sa
a
l
f
el
d
multi-thr
e
aded RobustN
o
r
m
a
lizeL
o
calCo
n
trast main body
commit
|
commitdiff
|
tree
2012-09-01
Stephan Saalfeld
Re
m
oved Display
C
anvas
.
setDrawingColo
r
(int,in
t
,bo
o
lean
.
.
.
commit
|
commitdiff
|
tree
2012-08-31
Step
h
a
n
S
a
alf
e
ld
Merge
b
r
anch
'
m
a
ster' of s
s
h://repo
.
o
r
.
cz
/
srv/git
/
t
r
akem2
commit
|
commitdiff
|
tree
2012-08-31
St
e
phan Saalfeld
a
d
de
d
expe
r
ime
n
ta
l
l
o
cal co
n
t
r
a
st
e
nhancer RobustNormal
i
zeLo
.
.
.
commit
|
commitdiff
|
tree
2012-06-29
St
e
phan Saalfeld
r
e
moved
o
b
s
olete choice from a
l
i
gn laye
r
s dialog
commit
|
commitdiff
|
tree
2012-06-26
Stephan
Saal
f
el
d
s
p
lit ela
s
tic
m
o
n
ta
g
e
dia
l
og for block mat
c
h
i
ng an
d
u
se
commit
|
commitdiff
|
tree
2012-06-26
Stephan
S
a
a
lfeld
Merge branch 'mas
t
er' of ssh://repo
.
or
.
cz/srv/git/trake
m
2
commit
|
commitdiff
|
tree
2012-06-26
Stephan Saalf
e
ld
u
se and do not ignore alpha in help
e
r me
t
h
o
d
commit
|
commitdiff
|
tree
2012-06-21
Stepha
n
Saalfeld
u
s
e th
e
new sequential
d
i
a
logs in "montage" for a
s
electi
o
n
.
.
.
commit
|
commitdiff
|
tree
2012-06-20
Stephan
S
aa
l
feld
M
e
rge
branch 'ma
s
te
r
'
of ssh://repo
.
or
.
cz/srv/git/t
r
akem
2
commit
|
commitdiff
|
tree
2012-06-20
Step
h
an Saa
l
feld
f
i
xe
d
ra
n
ge check in layer alig
n
men
t
commit
|
commitdiff
|
tree
2012-06-14
St
e
phan Saalfe
l
d
fixed condition
c
heck in A
l
ign Laye
r
s for re
g
ularization
.
.
.
commit
|
commitdiff
|
tree
2012-06-14
Stephan S
a
alfeld
Merge branch 'master
'
into
re
g
ularize
d
-
a
ffin
e
commit
|
commitdiff
|
tree
2012-06-08
Stephan S
a
alfeld
do not consider disconne
c
t
e
d tile
s
commit
|
commitdiff
|
tree
2012-06-08
Steph
a
n Saalfeld
M
erge branch 'regular
i
z
e
d-affine' of ss
h
:
/
/rep
o
.
or
.
.
.
commit
|
commitdiff
|
tree
2012-06-08
Stepha
n
Saalfeld
p
re
-
al
i
gn g
r
ap
h
s and match only
o
v
erlappi
n
g tiles
commit
|
commitdiff
|
tree
2012-06-08
Stephan Saalfeld
pre-al
i
gn graphs a
n
d match
o
nly overlapping til
e
s
commit
|
commitdiff
|
tree
2012-06-08
Ste
p
h
a
n Saalfel
d
in
i
tial
i
ze T
i
l
e models
a
nd n
o
t onl
y
patc
h
es i
n
al
i
gnGraphs
commit
|
commitdiff
|
tree
2012-06-08
Stephan
S
aa
l
f
e
ld
changed a
l
ignGr
a
phs input colle
c
tions from
S
et to
Iterable
commit
|
commitdiff
|
tree
2012-06-08
St
e
phan Sa
a
lfeld
m
a
ke
s
ure that static parameters do not o
v
erride each
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Stepha
n
Sa
a
l
fel
d
remo
v
e s
p
urio
u
s import
commit
|
commitdiff
|
tree
2012-06-05
S
tepha
n
Saalf
e
ld
workaround Oracle javac generics issue
commit
|
commitdiff
|
tree
2012-06-05
Steph
a
n
S
a
alfeld
multi-l
a
ye
r
-mosaic
u
s
e
s Para
m
/ParamOptimize
.
setup(String
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
St
e
phan Saalfeld
montage layers u
s
es ParamOptimize
.
setup instead of
.
.
.
commit
|
commitdiff
|
tree
2012-06-05
Stepha
n
Saalfe
l
d
do n
o
t fix a random tile i
f
n
o
ne is fix
e
d
commit
|
commitdiff
|
tree
2012-05-29
Stepha
n
Saalf
e
ld
C
o
nde
n
s
e
d
.
mailmap
commit
|
commitdiff
|
tree
2012-05-29
Stephan S
a
alfeld
Added
.
mailmap
commit
|
commitdiff
|
tree
2012-05-21
S
t
ep
h
a
n
Saal
f
eld
Merge branch 'm
a
s
t
er' into regularized-
a
ff
i
ne
commit
|
commitdiff
|
tree
2012-05-21
Stephan Saalfeld
a
d
d
e
d *None*
field
to layer range refe
r
en
c
e selecti
o
n
commit
|
commitdiff
|
tree
2012-05-21
Stephan Sa
a
lfeld
split
A
lign
.
ParamO
p
timize dial
o
gs in pieces
t
hat f
i
t
.
.
.
commit
|
commitdiff
|
tree
2012-05-21
Ste
p
han
S
a
alfeld
added
GenericAffineTile2D
commit
|
commitdiff
|
tree
2012-05-21
Stephan Saalfeld
generalized Ab
s
tra
c
tAffineTile2D g
e
ne
r
ic
paramete
r
commit
|
commitdiff
|
tree
2012-05-15
Ste
p
han Saalfeld
track
refact
o
ring in m
p
icbg
.
commit
|
commitdiff
|
tree
2012-05-09
Stephan Sa
a
lfeld
added
regular
i
ze
d
affine l
a
yer ali
g
nment,
commit
|
commitdiff
|
tree
2012-03-28
Ste
p
han Saa
l
feld
fixed createI
m
age(
)
:
use premultiplie
d
raster
commit
|
commitdiff
|
tree
2012-03-27
Step
h
an S
a
alf
e
l
d
do not pr
i
nt
t
he mipmap scale
commit
|
commitdiff
|
tree
2012-03-27
Stephan Saalfe
l
d
for now, do not use p
r
e-mu
l
tiplied alpha
sin
c
e
it do
e
s
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Steph
a
n Saalfeld
Fi
x
e
d wrong
pa
i
nting
o
f
Patches when
u
s
ing
a
downs
a
mpl
e
r
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stephan Saalfe
l
d
Downsam
p
l
erM
i
p
M
a
ps now consistently uses com
b
i
n
e
d do
w
nsampli
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stephan
Saalfeld
fixed
Down
s
amplerMipMaps blendin
g
merg
e
d alph
a
i
n
to
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stephan Sa
a
lfeld
D
o
wnsampler test stil
l
shows it
being significan
t
l
y
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
S
t
epha
n
S
a
alfe
l
d
F
i
x
ed Downsampl
e
r: range check in
b
yte
c
o
nve
r
sion was
.
.
.
commit
|
commitdiff
|
tree
2012-03-27
Stephan Saalfeld
M
e
rge bran
c
h 'integ
r
al' of ssh://
r
epo
.
or
.
cz/srv/g
i
t
.
.
.
commit
|
commitdiff
|
tree
2012-03-08
St
e
phan Sa
a
lfe
l
d
add
e
d
missing pac
k
age to Fakefile
commit
|
commitdiff
|
tree
2012-03-08
Stephan S
a
alfeld
Merge branc
h
'master
'
of ssh:
/
/repo
.
or
.
cz/srv/gi
t
/trakem2
commit
|
commitdiff
|
tree
2012-03-08
Stephan Saalfeld
fix lo
c
a
l
sc
a
le esti
m
a
t
e
commit
|
commitdiff
|
tree
2012-03-07
Step
h
a
n
Saalfeld
ad
d
ed ge
t
LocalSc
a
l
e
(x,y)
m
et
h
od to P
a
tch
commit
|
commitdiff
|
tree
2012-03-07
St
e
phan Saalfeld
patch does not pro
p
a
g
ate NonInvertibleModelEx
c
eption
.
.
.
commit
|
commitdiff
|
tree
2012-03-07
Ste
p
h
a
n
S
aalf
e
l
d
M
erge branch 'mast
e
r'
o
f ssh://repo
.
or
.
cz/srv/git/trakem2
commit
|
commitdiff
|
tree
2012-03-07
Stephan
S
aalfeld
a
dded me
t
hods to fetch the closest triangle o
f
a transform
.
.
.
commit
|
commitdiff
|
tree
2012-02-27
Stephan Saalfeld
i
n
the
m
iddle of
.
.
.
amend with fina
l
co
m
mit
commit
|
commitdiff
|
tree
2012-02-27
Step
h
a
n
S
aalfeld
demonstrate b
y
te conversion i
n
a
n
e
xtra l
o
op to be
.
.
.
commit
|
commitdiff
|
tree
2012-02-25
Stephan Saalfeld
Merge br
a
nch
'integral' of
s
s
h://repo
.
or
.
cz
/
srv/git
.
.
.
commit
|
commitdiff
|
tree
2012-02-25
Stephan
S
aal
f
eld
Downsampler finished
.
I hav
e
tes
t
ed
seve
r
al va
r
iant
s
.
.
.
commit
|
commitdiff
|
tree
2012-02-24
Stephan Saal
f
eld
experima
n
tal commi
t
:
commit
|
commitdiff
|
tree
2012-02-23
Stepha
n
S
aal
f
eld
M
e
r
g
e
b
ranch
'
inte
g
r
a
l
' of
s
s
h://r
e
po
.
or
.
cz/srv/git
.
.
.
commit
|
commitdiff
|
tree
2012-02-23
S
t
e
phan Saalf
e
l
d
Downsampler with
a
lpha-channels rendering into byte
.
.
.
commit
|
commitdiff
|
tree
2012-02-22
Stephan Saalfeld
M
e
rge branch 'master' of s
s
h
:
//repo
.
or
.
cz/srv
/
g
i
t/trakem2
commit
|
commitdiff
|
tree
2012-02-22
Stephan Saalfeld
s
e
t interpolation m
o
de to actu
a
lly
inte
r
polate masks
commit
|
commitdiff
|
tree
2012-01-06
Step
h
a
n
Saalf
e
l
d
Fixe
d
bug 392, the prope
r
ty n_mipmaps_thr
e
a
d
s must
.
.
.
commit
|
commitdiff
|
tree
2011-11-07
Steph
a
n
Saalfel
d
ElasticMontage: do not visua
l
ize
commit
|
commitdiff
|
tree
2011-11-07
S
t
e
p
han
Saalfeld
Merg
e
b
r
anch
'
master' of s
s
h:/
/
repo
.
o
r
.
cz/s
r
v/
g
i
t/tr
a
kem2
commit
|
commitdiff
|
tree
2011-11-07
Stephan Saalfeld
A
lignT
a
sk: really skip layers annotation-with linke
d
.
.
.
commit
|
commitdiff
|
tree
2011-11-07
Ste
p
han Saalfel
d
ElasticMontage:
r
espect f
i
xed Pa
t
che
s
(from select
i
on
.
.
.
commit
|
commitdiff
|
tree
2011-11-07
S
te
p
h
an Saalfeld
renamed shad
i
ng local parameter
commit
|
commitdiff
|
tree
2011-11-07
Stephan
Saalfeld
A
t
tempt to fix bug 380
.
P
lease c
h
ec
k
if the behavior
commit
|
commitdiff
|
tree
2011-11-07
Step
h
an Saalfeld
added comments
a
n
d
fixed typo
commit
|
commitdiff
|
tree
2011-10-22
Stephan Saalfeld
ElasticAl
i
gnm
e
n
t
/Montage:
commit
|
commitdiff
|
tree
2011-10-19
Stephan
S
aalfeld
Merge bra
n
c
h '
m
aster' of ssh://repo
.
or
.
cz/sr
v
/git/trakem2
commit
|
commitdiff
|
tree
2011-10-12
Stephan
S
a
a
lfeld
Merge bran
c
h 'master' of ssh:
/
/repo
.
or
.
cz/sr
v
/git/trakem2
commit
|
commitdiff
|
tree
2011-10-10
St
e
p
h
a
n Saalfeld
Merge branch 'master' of
s
sh://repo
.
o
r
.
c
z
/
s
rv/git/
t
rak
e
m2
commit
|
commitdiff
|
tree
2011-10-10
S
tephan Saalfeld
Align use
s
Utils
.
log inste
a
d
of IJ
.
log
commit
|
commitdiff
|
tree
2011-10-10
Ste
p
han Saalfeld
Distor
t
ion corre
c
t
ion
u
ses
Utils
.
log instead of IJ
.
log
commit
|
commitdiff
|
tree
2011-10-10
St
e
p
h
an Saalfeld
log tim
e
an
d
dat
e
pear each l
o
g print
commit
|
commitdiff
|
tree
2011-10-10
Stephan Sa
a
lfeld
a
d
ded ex
p
erimental 16b
i
t
unsigned tile
s
exp
o
rter
commit
|
commitdiff
|
tree
2011-10-10
Stephan Saalfeld
Trans
f
ormMeshMappingWith
M
asks got methods and
r
ende
r
ing
commit
|
commitdiff
|
tree
2011-10-01
Stephan Saalfeld
make IJ
.
log to U
t
i
l
s
.
log
in Ela
s
ticLayerAl
i
gnment
commit
|
commitdiff
|
tree
2011-09-29
Stephan Saalfeld
added block radiu
s
as p
a
ram
e
ter to
commit
|
commitdiff
|
tree
2011-09-28
Step
h
an
Sa
a
lfeld
ElasticLayerAli
g
nment visualization
b
ack to false
commit
|
commitdiff
|
tree
2011-09-27
Stephan Saalfeld
springme
s
h
d
a
m
p
b
ack to normal, not
much
commit
|
commitdiff
|
tree
2011-09-27
Stephan
Saalfeld
M
er
g
e
bran
c
h 'mast
e
r' o
f
ssh:
/
/repo
.
or
.
cz/s
r
v
/
git
/
trakem2
commit
|
commitdiff
|
tree
2011-09-27
St
e
phan
Saalfeld
added local s
m
o
o
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