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scan of worm works now
2010-08-31
martin
scan of wo
r
m works now
commit
|
commitdiff
|
tree
2010-08-28
mart
i
n
forg
o
t to sa
v
e draw-m
o
d
e
l
commit
|
commitdiff
|
tree
2010-08-28
martin
for a
l
ong tim
e
i f
o
rgot t
o
commit frontend/model
.
l
i
sp
commit
|
commitdiff
|
tree
2010-08-28
martin
t
he p
s
f has the right orien
t
a
tion now
commit
|
commitdiff
|
tree
2010-08-28
m
a
rtin
i can
n
ow render the con
v
olved volum
e
ontop of the
.
.
.
commit
|
commitdiff
|
tree
2010-08-27
m
a
rtin
f
f
t
shift
w
as at
w
rong p
l
ace in convolve-
c
irc
commit
|
commitdiff
|
tree
2010-08-27
martin
the dispa
t
ch funct
i
on for ft didn't h
a
ve t as default
.
.
.
commit
|
commitdiff
|
tree
2010-08-27
martin
played with convolution
commit
|
commitdiff
|
tree
2010-08-26
mart
i
n
model
g
e
nerator se
e
ms
to
work
commit
|
commitdiff
|
tree
2010-08-26
martin
introdu
c
tion of class
e
s to stor
e
t
he models
commit
|
commitdiff
|
tree
2010-08-26
martin
fro
n
tend/ com
p
iles now, there were
some changes necessary
.
.
.
commit
|
commitdiff
|
tree
2010-08-26
martin
move code fro
m
run and angular-illumination i
n
t
he
.
.
.
commit
|
commitdiff
|
tree
2010-08-26
m
art
i
n
un
d
o
p
a
rallelization
commit
|
commitdiff
|
tree
2010-08-26
marti
n
parall
e
l
i
zed nuc
l
ei sca
n
b
ut it doesn't scale well
commit
|
commitdiff
|
tree
2010-08-25
martin
d
e
l
eted a lot of
stuff in ang
u
la
r
-il
l
umination and
.
.
.
commit
|
commitdiff
|
tree
2010-08-25
martin
moved function that g
e
nerates direct
i
on f
r
om
t
wo angles
.
.
.
commit
|
commitdiff
|
tree
2010-08-25
mart
i
n
forgot package
commit
|
commitdiff
|
tree
2010-08-25
ma
r
tin
move drawing
f
uncti
o
ns i
n
t
o gu
i
commit
|
commitdiff
|
tree
2010-08-25
martin
create p
a
ckage
f
or lens
/
commit
|
commitdiff
|
tree
2010-08-25
martin
replaced t
h
e d
e
f
s
tructs in
l
en
s
/ with defcla
s
s objects
.
.
.
commit
|
commitdiff
|
tree
2010-08-25
martin
rayt
r
ace compiles again, so
m
e changes in
a
ngular-il
l
uminatio
.
.
.
commit
|
commitdiff
|
tree
2010-08-25
m
artin
ray-
s
pher
e
-intersection
-
le
n
gth a
n
d
ray-spheres-intersec
t
i
o
n
.
.
.
commit
|
commitdiff
|
tree
2010-08-25
m
artin
introd
u
ced conditions into q
u
adrati
c
solver
commit
|
commitdiff
|
tree
2010-08-25
martin
de
f
class
r
ay in vector
commit
|
commitdiff
|
tree
2010-08-23
ma
r
t
i
n
in
t
roduce
the
macro v
.
use v i
f
y
o
u
want to crea
t
e
.
.
.
commit
|
commitdiff
|
tree
2010-08-23
martin
draw objectiv
e
commit
|
commitdiff
|
tree
2010-08-23
martin
dr
a
w the model
commit
|
commitdiff
|
tree
2010-08-23
m
a
rtin
added gui
commit
|
commitdiff
|
tree
2010-08-20
martin
added simplex-anneal to
r
u
n
.
lisp s
o
that
it compi
l
es
.
.
.
commit
|
commitdiff
|
tree
2010-08-19
m
a
r
tin
create a testsam
p
le cons
i
sting
o
f a
plane of spheres
.
.
.
commit
|
commitdiff
|
tree
2010-08-19
martin
resample-2 was also wrong
commit
|
commitdiff
|
tree
2010-08-19
martin
t
h
e
re was a spurio
u
s fa
c
t
or in run
.
lisp
.
.
draw-ovals
commit
|
commitdiff
|
tree
2010-08-19
ma
r
ti
n
actually divide by n after
each forward tran
s
fo
r
m a
n
d
.
.
.
commit
|
commitdiff
|
tree
2010-08-19
martin
for co
n
volutio
n
to work we
l
l
f
f
t
ha
s
to divide by
s
qrt
.
.
.
commit
|
commitdiff
|
tree
2010-08-19
martin
c
o
nvolve shouldn't mu
l
tiply wi
t
h n
commit
|
commitdiff
|
tree
2010-08-19
ma
r
tin
f
i
xed
resample (the ar
g
uments xx yy zz were shuffl
e
d)
commit
|
commitdiff
|
tree
2010-08-19
martin
i
had
t
o verify
t
hat cufft actual
l
y
works in c
commit
|
commitdiff
|
tree
2010-08-19
martin
cud
a
-fft bug in cud
a
-free,
now i
t
w
o
rks
commit
|
commitdiff
|
tree
2010-08-18
martin
psf didn't work
b
ecause of really
b
ad error in ffi
.
.
.
commit
|
commitdiff
|
tree
2010-08-18
martin
that lay around a wh
i
le uncommited
commit
|
commitdiff
|
tree
2010-08-18
martin
di
s
able cuda for now as
its
n
ot reli
a
ble
commit
|
commitdiff
|
tree
2010-08-16
martin
mov
e
d cuda-fft into v
o
l
and
u
sed
macros to write the
.
.
.
commit
|
commitdiff
|
tree
2010-08-16
martin
operator
.
.
i fo
r
got to put * in
s
tead of + in t
h
e
.
.
.
commit
|
commitdiff
|
tree
2010-08-16
martin
macro-macro
s
.
.
get-s
h
ort
-
t
ype didn't work
f
o
r
(complex
.
.
.
commit
|
commitdiff
|
tree
2010-08-13
martin
the following vol fil
e
s c
o
mp
i
le
commit
|
commitdiff
|
tree
2010-08-13
m
art
i
n
interp
o
lat
i
on general function
commit
|
commitdiff
|
tree
2010-08-13
martin
resample
commit
|
commitdiff
|
tree
2010-08-13
mart
i
n
in
t
er
p
olate shou
l
d
w
o
r
k now, I wa
s
a
b
le to delete a
.
.
.
commit
|
commitdiff
|
tree
2010-08-13
martin
ch
a
nged
cross-section-xz into ma
c
ro
commit
|
commitdiff
|
tree
2010-08-13
martin
cre
a
te
d
.
gitignor
e
commit
|
commitdiff
|
tree
2010-08-13
mar
t
i
n
sp
r
ead the contents of vol over
a
lo
t
of files
commit
|
commitdiff
|
tree
2010-08-13
mart
i
n
startin
g
to split
the big vol
.
l
i
sp into sm
a
ll
e
r part
s
commit
|
commitdiff
|
tree
2010-08-13
martin
moved
fft-
h
elpers
commit
|
commitdiff
|
tree
2010-08-13
martin
fft-helpers
.
.
i'm tr
y
ing
t
o
write one fftshift f
u
nct
i
on
.
.
.
commit
|
commitdiff
|
tree
2010-08-12
m
a
r
tin
t
ried to introduce a wa
y
t
o switch
f
rom double
t
o single
.
.
.
commit
|
commitdiff
|
tree
2010-08-12
martin
cuda-fft ha
s
some un
u
sa
b
l
e macros r
e
pla
c
e them wit
h
.
.
.
commit
|
commitdiff
|
tree
2010-08-12
ma
r
tin
cud
.
c just s
o
me output formatting
commit
|
commitdiff
|
tree
2010-08-12
martin
I'm un
d
ec
i
ded how
t
o ha
n
dle t
h
e multip
l
e
f
ft li
b
s
.
.
.
.
commit
|
commitdiff
|
tree
2010-08-12
martin
ex
p
o
r
t t
y
po and missing vol dependency
i
n
lisp and
.
.
.
commit
|
commitdiff
|
tree
2010-08-12
martin
v
ol
.
asd missin
g
d
ep
e
ndencie
s
commit
|
commitdiff
|
tree
2010-08-12
m
artin
cuda-fft
.
lisp commited to lisppa
s
te
commit
|
commitdiff
|
tree
2010-08-12
marti
n
moved fftw
f
u
nctions
f
rom vol into fftw-ff
t
commit
|
commitdiff
|
tree
2010-08-12
martin
cuda-
f
ft
.
.
ft3
-
csf-cuda and ift3
.
.
wi
t
h
s
ame sem
a
ntics
.
.
.
commit
|
commitdiff
|
tree
2010-08-11
martin
cuda-ff
t
.
.
wrapper for cuf
f
t
, seems to work
.
commit
|
commitdiff
|
tree
2010-08-11
m
ar
t
in
cuda-fft 3d fft
but haven't checked
the ou
t
put cu
d
a
.
.
.
commit
|
commitdiff
|
tree
2010-08-11
ma
r
tin
c
u
d
a
c t
e
st program does a
80x80x80 complex
s
i
ng
l
e
.
.
.
commit
|
commitdiff
|
tree
2010-08-09
martin
r
a
n the simul
a
t
i
on ov
e
r t
h
e fu
l
l stack
.
th
a
t took 6900s
commit
|
commitdiff
|
tree
2010-08-09
m
a
rtin
an
g
ular
.
.
resample th
e
psf to t
h
e same resol
u
tion as
.
.
.
commit
|
commitdiff
|
tree
2010-08-06
martin
w
ith
a
sm
a
l
l
window the
1
u
m z-
s
t
ep is
o
k
ay
commit
|
commitdiff
|
tree
2010-08-06
martin
psf will h
a
v
e
to be resampled for big windows
commit
|
commitdiff
|
tree
2010-08-06
m
a
rtin
vector
.
.
v2*
v2
.
for
t
wo compo
n
e
nt doubl
e
vec
s
commit
|
commitdiff
|
tree
2010-08-06
martin
angular
.
.
overlay spheres and l
i
ghtfield
commit
|
commitdiff
|
tree
2010-08-06
mar
t
in
vol
.
lisp cha
n
ge of
.
* I subtract
e
d
t
h
e
offsets inst
e
ad
.
.
.
commit
|
commitdiff
|
tree
2010-08-06
martin
g
et-l
c
os-vo
l
u
m
e
and start
e
d calc-light-field
commit
|
commitdiff
|
tree
2010-08-05
martin
deleted dbind
commit
|
commitdiff
|
tree
2010-08-05
martin
disable volume
chec
k
of simplex in s
i
mplex-anneal
commit
|
commitdiff
|
tree
2010-08-05
m
a
rtin
tried to
ch
e
ck the
v
ol
u
me of the simplex
b
ut this doesn
.
.
.
commit
|
commitdiff
|
tree
2010-08-05
ma
r
ti
n
bug in simplex-a
n
neal: introduci
n
g simple-a
r
ray broke
.
.
.
commit
|
commitdiff
|
tree
2010-08-05
m
arti
n
changed angular-illum
so that psf is re
i
n
i
tialized
commit
|
commitdiff
|
tree
2010-07-31
martin
tried a b
i
t
more with annealing, sti
l
l does
n
't work
commit
|
commitdiff
|
tree
2010-07-31
martin
fix simple-ar
r
ay problems in annea
l
ing code
commit
|
commitdiff
|
tree
2010-07-31
ma
r
tin
angular
-
ps
f
reme
m
bers the caps now, s
p
eeds up from
.
.
.
commit
|
commitdiff
|
tree
2010-07-31
mart
i
n
typo
commit
|
commitdiff
|
tree
2010-07-31
martin
angular-int
e
nsity
-
psf-
m
inimal-ext
e
nt calcul
a
tes the
.
.
.
commit
|
commitdiff
|
tree
2010-07-30
martin
output bfp mo
s
a
i
c fr
o
m angular-il
.
.
commit
|
commitdiff
|
tree
2010-07-30
mart
i
n
removed t
h
e disk fro
m
t
h
e center
of the apo
t
ome simulation
.
.
.
commit
|
commitdiff
|
tree
2010-07-30
martin
went th
r
ough angul
a
r-illumination an
d
verified that
.
.
.
commit
|
commitdiff
|
tree
2010-07-29
martin
corrected a
p
otome
.
li
s
p
commit
|
commitdiff
|
tree
2010-07-25
martin
moved mean-re
a
l
part
i
n
t
o
vol
.
li
s
p
commit
|
commitdiff
|
tree
2010-07-23
martin
s
tarted im
p
lementing
t
he exposure predi
c
t
i
on
f
or widefield
.
commit
|
commitdiff
|
tree
2010-07-12
martin
macro def-
c
onvert to gener
a
te
a
bunch of convers
i
on
.
.
.
commit
|
commitdiff
|
tree
2010-07-09
martin
some
more 2d
stuff
.
*2
.
+2 in vol
.
l
isp
commit
|
commitdiff
|
tree
2010-07-09
martin
implemented 2d fouriertran
s
form
commit
|
commitdiff
|
tree
2010-07-09
mart
i
n
prepared
s
ome code for incohe
r
ent illu
m
ination wit
h
.
.
.
commit
|
commitdiff
|
tree
2010-07-08
m
artin
added
code to read a stack ou
t
of a time
s
e
r
ies (raw
.
.
.
commit
|
commitdiff
|
tree
2010-07-07
mart
i
n
added deconvolut
i
o
n pro
t
otype
commit
|
commitdiff
|
tree
2010-07-06
martin
I added
all
t
he functions to run
.
li
s
p that I will need
.
.
.
commit
|
commitdiff
|
tree
2010-07-05
m
artin
d
e
leted som
e
comment
s
from
r
aytr
a
c
e
.
lisp
commit
|
commitdiff
|
tree
2010-07-05
martin
moved some misc functions from run
.
lisp into vo
l
.
lisp
commit
|
commitdiff
|
tree
2010-07-05
m
a
r
t
in
copied 3d li
n
e
d
r
a
wing functions from
run
.
lisp into
.
.
.
commit
|
commitdiff
|
tree
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