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d2::trans_multi: Add --mi option (useful for debugging multi-alignment
2008-06-01
David Hilvert
d2::trans_multi
:
A
d
d --mi option (useful for debugging
.
.
.
commit
|
commitdiff
|
tree
2008-05-31
David Hilvert
d2::align: Ma
k
e --lod-preferred=-3
default
.
commit
|
commitdiff
|
tree
2008-05-31
David
H
i
lvert
Resolve compi
l
ation issues
.
commit
|
commitdiff
|
tree
2008-05-31
David
Hil
v
ert
d2::align::_alig
n
()
:
Don't cast log2(per
t
urb
)
to uns
i
g
n
e
d
.
.
.
commit
|
commitdiff
|
tree
2008-05-31
David Hil
v
ert
d2
:
:
align::_align_element
(
): Don'
t
cast log
2
(
p
erturb
.
.
.
commit
|
commitdiff
|
tree
2008-05-31
David H
i
lvert
d
2::align::_align_element(
)
: Scale a
d
j_p for retained
.
.
.
commit
|
commitdiff
|
tree
2008-05-31
D
avid Hi
l
vert
d2::
a
lign::
_
align_element(): reduce lod according
t
o
.
.
.
commit
|
commitdiff
|
tree
2008-05-30
Dav
i
d Hilvert
d2:
:
align::_align(): Use correct va
r
i
a
bles
.
commit
|
commitdiff
|
tree
2008-05-30
Da
v
id
Hilvert
d2::ali
g
n
:
:
_align(): In
i
ti
a
l
i
z
e
steps from lod, not
.
.
.
commit
|
commitdiff
|
tree
2008-05-30
David Hilver
t
d2:
:
a
l
ign::_a
l
ign()
:
Initialize adj_p from
l
od, n
o
t
.
.
.
commit
|
commitdiff
|
tree
2008-05-30
David Hilvert
d
2::align::_align(): Adjust level-of-detail
to a
c
co
m
modate
.
.
.
commit
|
commitdiff
|
tree
2008-05-30
D
a
vi
d
Hilvert
d2::alig
n
::_align
(
): Replace
in
s
t
ances of
l
o
d
_
preferred
.
.
.
commit
|
commitdiff
|
tree
2008-05-29
Dav
i
d Hil
v
ert
d2:
:
a
l
ign::_ali
g
n: B
e
g
i
n implementatio
n
of
m
i
n-dim
e
nsion
.
.
.
commit
|
commitdiff
|
tree
2008-05-28
David Hilvert
d2::align: Add
n
ew option
s
--lod
-
preferred
a
nd --min
.
.
.
commit
|
commitdiff
|
tree
2008-05-26
David
H
i
lvert
d2::align::_a
l
ign
(
)
: A
n
noun
c
e alignment steps fo
r
each
.
.
.
commit
|
commitdiff
|
tree
2008-05-25
David Hilvert
testsui
t
e
/
ale
.
0
1/al
i
gn
.
exp: Revise
f
or curr
e
nt
s
cript
.
.
.
commit
|
commitdiff
|
tree
2008-05-25
D
avid Hilvert
ale: Recogni
z
e a
n
d skip
--trans
-
{load,
s
ave}
a
rguments
.
.
.
commit
|
commitdiff
|
tree
2008-05-25
D
avid Hi
l
ve
r
t
ui/
u
i
.
h: A
t
t
e
mpted f
i
x
fo
r
Debian bu
g
#4
8
2
765
f
or sparc
.
.
.
commit
|
commitdiff
|
tree
2008-05-24
David Hilvert
ui::
u
i_
l
og
:
Ad
d
output for scale cluster refe
r
ence
.
.
.
commit
|
commitdiff
|
tree
2008-05-19
David
H
ilvert
Fix compilation errors
.
commit
|
commitdiff
|
tree
2008-05-14
David Hilver
t
d2::render::ipc: Inc
o
r
por
a
te loc
a
l tonal
m
ult
i
plie
r
.
.
.
commit
|
commitdiff
|
tree
2008-05-14
David Hilver
t
d2::r
e
n
d
er::ipc:
U
se l
o
cal tonal multipliers for
s
imulating
.
.
.
commit
|
commitdiff
|
tree
2008-05-14
David Hil
v
ert
d2::trans_*
:
A
d
d
a metho
d
for ob
t
ai
n
ing
a tonal multiplier
.
.
.
commit
|
commitdiff
|
tree
2008-05-13
D
a
vid Hilvert
d2::render
:
:incremental:
A
djust prev_value an
d
value
.
.
.
commit
|
commitdiff
|
tree
2008-05-05
David Hilvert
d2::trans_m
u
l
t
i::
s
et_mu
l
t
i: Use correct sens
e
f
o
r t
h
e
.
.
.
commit
|
commitdiff
|
tree
2008-05-05
David Hilver
t
d2::align::r
u
n
:
:sampl
e
: Account for tonal
r
e
g
i
stration
.
.
.
commit
|
commitdiff
|
tree
2008-05-05
David Hilvert
d2
:
:align
:
:
s
et_exposure_ra
t
io
(
): A
d
d missing refer
e
n
c
e
.
.
.
commit
|
commitdiff
|
tree
2008-05-05
D
a
vid Hi
l
vert
d2::alig
n
: Stren
g
t
h
en conditi
o
ns
o
n t
o
nal regis
t
ration
.
.
.
commit
|
commitdiff
|
tree
2008-05-05
David Hilvert
d2::trans_
m
u
l
ti: Us
e
cur
r
ent_element by de
f
ault whe
n
.
.
.
commit
|
commitdiff
|
tree
2008-05-05
Dav
i
d H
i
lvert
d2::align: Add code
for
c
a
lculating tonal regsitration
.
.
.
commit
|
commitdiff
|
tree
2008-05-02
David Hilvert
d
2::trans_
m
ulti,
d
2::align: e
n
c
apsulate bounds scaling
.
.
.
commit
|
commitdiff
|
tree
2008-05-02
Davi
d
Hilvert
d2::trans_multi::se
t
_multi(): modify spa
t
io-elemental
.
.
.
commit
|
commitdiff
|
tree
2008-05-02
David Hilvert
d2::trans_*:
Add code for assigning, storing, and
r
etrieving
.
.
.
commit
|
commitdiff
|
tree
2008-04-27
David Hi
l
vert
u
i
::help::align: Ma
t
ch parentheses
.
commit
|
commitdiff
|
tree
2008-04-27
Da
v
id Hilvert
S
e
t
--ma-c
e
rt default 0
.
01
.
commit
|
commitdiff
|
tree
2008-04-26
David
H
ilv
e
rt
d
2
:
:ali
g
n
:
:_align()
:
Limit skipping of the alig
n
m
e
nt
.
.
.
commit
|
commitdiff
|
tree
2008-04-26
David Hil
v
ert
d2::align: Add method ma_c
e
rt_
s
atisfied
(
), a
n
d
u
se
.
.
.
commit
|
commitdiff
|
tree
2008-04-24
D
a
v
id Hilvert
d2::al
i
g
n
: Add
a
st
a
tic variable for mult
i
-alignm
e
nt
.
.
.
commit
|
commitdiff
|
tree
2008-04-23
D
avid Hilvert
ale
:
Count t
h
r
eads when ALE
_
C
OUNT_THREAD
S
=1
.
commit
|
commitdiff
|
tree
2008-04-22
David Hilve
r
t
ui/help
.
h: Add d
o
cumentation for an
--ma-cert
o
p
t
ion
.
.
.
commit
|
commitdiff
|
tree
2008-04-14
David Hilvert
doc/web
:
Updat
e
for 0
.
9
.
0
.
commit
|
commitdiff
|
tree
2008-04-14
David Hilvert
Make --md 1
0
0
de
f
ault
.
commit
|
commitdiff
|
tree
2008-04-14
D
avid Hil
v
ert
doc
:
up
d
at
e
s for 0
.
9
.
0
.
commit
|
commitdiff
|
tree
2008-04-12
David Hilvert
doc/w
e
b: P
l
a
c
e
e
x
amples secti
o
n
m
ore visibly
.
commit
|
commitdiff
|
tree
2008-04-12
David H
i
lvert
doc/w
e
b: Revise distribution s
t
a
t
us
s
ection
.
commit
|
commitdiff
|
tree
2008-04-12
D
a
vid Hilvert
do
c
/we
b
: Add example s
e
c
t
i
on c
r
e
dit
.
commit
|
commitdiff
|
tree
2008-04-12
Da
v
id Hil
v
ert
d
o
c/w
e
b
: Use r
e
po
.
or
.
cz
t
erminology for the summ
a
ry
.
.
.
commit
|
commitdiff
|
tree
2008-04-11
David H
i
l
ve
r
t
u
i
:
M
odify alignment
s
t
atus
u
p
da
t
e t
o
r
ed
u
c
e th
e
numbe
r
.
.
.
commit
|
commitdiff
|
tree
2008-04-11
David Hilve
r
t
d2::ali
g
n
: Perform p
o
st-
m
atching using trans_multi
.
.
.
commit
|
commitdiff
|
tree
2008-04-10
D
a
vid Hilvert
d2
:
:a
l
ign:
Ensure that
the is_default arra
y
is co
r
rectly
.
.
.
commit
|
commitdiff
|
tree
2008-04-10
David Hilv
e
rt
d
2::tfile::tload_nex
t
(
)
: Correct count check for a
.
.
.
commit
|
commitdiff
|
tree
2008-04-10
David Hilvert
d
2
::file:
:
tloa
d
_nex
t
():
A
d
d
c
o
d
e to automatically skip
.
.
.
commit
|
commitdiff
|
tree
2008-04-10
David Hilvert
d2::
t
file: Add m
u
lt
i
-coordinate indices to t
h
e
tail
.
.
.
commit
|
commitdiff
|
tree
2008-04-10
David Hi
l
vert
Disable multi-alignment
f
or
-
-md 0
.
commit
|
commitdiff
|
tree
2008-04-10
David Hi
l
vert
d2::ali
g
n::ast
a
te
_
t:
p
ro
v
i
de
for changes in
the size
.
.
.
commit
|
commitdiff
|
tree
2008-04-09
David
Hilvert
d2::align:
Update f
o
llowing to fix semantics
a
nd to
.
.
.
commit
|
commitdiff
|
tree
2008-04-04
David Hil
v
ert
doc
/
we
b
/index: Make distribution
d
escript
i
ons mo
r
e
.
.
.
commit
|
commitdiff
|
tree
2008-04-04
David
Hilv
e
rt
doc/web/
i
ndex: Add sectio
n
for distri
b
ution status
.
commit
|
commitdiff
|
tree
2008-03-28
David Hilve
r
t
doc/web/index
.
t
x
t: Add
'
GUI' section with an
entry
.
.
.
commit
|
commitdiff
|
tree
2008-03-26
David Hilvert
d
2
::al
i
g
n
:
:_align_element
:
Move UI output cod
e
in the
.
.
.
commit
|
commitdiff
|
tree
2008-03-24
David Hilvert
d2::tr
a
n
s_abstract::bd:
R
e
move failing ass
e
rtion
.
commit
|
commitdiff
|
tree
2008-03-24
David Hilv
e
r
t
d2::trans_mult
i
: Fix bugs
in spatio-elemental
m
ap as
s
ignment
.
commit
|
commitdiff
|
tree
2008-03-23
David Hilvert
d2:
:
t
r
a
n
s
_multi
:
Add support for alignmen
t
in the ca
s
e
.
.
.
commit
|
commitdiff
|
tree
2008-03-22
David H
i
lvert
d
2
::align: Set
t
ra
n
sfor
m
at
i
on
d
efaults
a
nd resc
a
le
.
.
.
commit
|
commitdiff
|
tree
2008-03-22
D
avid Hilvert
doc/web/ind
e
x/Examples: Add
a
link to
Gregory Maxwell
.
.
.
commit
|
commitdiff
|
tree
2008-03-21
David H
i
lvert
ui_log:
F
ix
t
ypo
.
commit
|
commitdiff
|
tree
2008-03-21
D
av
i
d Hilvert
web/inde
x
:
U
p
date 'Ima
g
e Galleri
e
s' t
o
the more gene
r
ic
.
.
.
commit
|
commitdiff
|
tree
2008-03-21
D
avi
d
Hilve
r
t
ui_log: Add
m
e
t
h
o
d sta
r
t_multi_
a
lignmen
t
_element()
.
.
.
commit
|
commitdiff
|
tree
2008-03-20
Dav
i
d
H
i
l
vert
ui::ui_log: Don
'
t record entire multi-alignm
e
nt
s
tructures
.
.
.
commit
|
commitdiff
|
tree
2008-03-19
David Hilvert
doc/w
e
b/manuals/ind
e
x
.
t
xt: Encode manuals page as Asci
i
Doc
.
commit
|
commitdiff
|
tree
2008-03-18
David
Hilvert
do
c
/
we
b
/f
o
oter-
h
tml
.
txt: Leave mo
r
e padding above footer
.
commit
|
commitdiff
|
tree
2008-03-17
Da
v
id Hilve
r
t
ui::ui_tty: Dur
i
n
g alignment, start
a
new line when
.
.
.
commit
|
commitdiff
|
tree
2008-03-17
David H
i
lvert
d2::align: Remove certain debugging output
.
commit
|
commitdiff
|
tree
2008-03-17
D
a
vid
Hilvert
Do
c
u
m
ent a m
e
thod for disabl
i
ng
--thr
e
s
h
o
l
d, and disable
.
.
.
commit
|
commitdiff
|
tree
2008-03-17
David Hi
l
vert
doc: Update Asc
i
iDoc HTML fo
o
ter for 'w
i
t
hout any warrant
y
.
.
.
commit
|
commitdiff
|
tree
2008-03-17
David
Hil
v
ert
doc
:
Revise front-
p
age
e
xamp
l
e
file
.
commit
|
commitdiff
|
tree
2008-03-17
David Hilvert
d
oc: Add
an asc
i
idoc generator
script
a
n
d ex
a
mple files
.
.
.
commit
|
commitdiff
|
tree
2008-03-13
David Hilvert
d2::a
l
ign
:
:_align: Don't
set the zeroth e
l
ement align
m
ent
.
.
.
commit
|
commitdiff
|
tree
2008-03-12
Dav
i
d Hilvert
Occasio
n
a
l
ly
write mul
t
i-
a
lignent struc
t
ures in
f
ull
.
.
.
commit
|
commitdiff
|
tree
2008-03-09
Davi
d
Hilvert
d2::align::_align: Rescale multi
-
alignment tran
s
formati
o
n
.
.
.
commit
|
commitdiff
|
tree
2008-03-09
David Hilvert
d
2
::align:
Fur
t
her updates for
m
i
gration to si
n
gle
.
.
.
commit
|
commitdiff
|
tree
2008-03-06
David Hilve
r
t
d2::alig
n
: Begin m
i
g
ration to using single-tran
s
formati
o
n
.
.
.
commit
|
commitdiff
|
tree
2008-02-14
Da
v
id H
i
lvert
d2::align: Set orig
i
na
l
bounds before alig
n
ing t
h
e
.
.
.
commit
|
commitdiff
|
tree
2008-02-14
D
avid Hilvert
d2::align: Im
p
lem
e
nt furt
h
er changes f
o
r
multi-alignment
.
commit
|
commitdiff
|
tree
2008-02-13
David Hilvert
d
2::alig
n
: Further m
o
difications for mu
l
t
i-
a
lignment
.
commit
|
commitdiff
|
tree
2008-02-13
D
a
v
id Hilvert
B
egin modif
i
cation
of d2
:
:ali
g
n
fo
r
multi-alignment
.
commit
|
commitdiff
|
tree
2008-02-13
David H
i
lv
e
rt
Resolve compiler warnings
.
commit
|
commitdiff
|
tree
2008-02-13
D
a
vid
H
ilvert
d2::trans_m
u
lti
:
I
mple
m
ent mul
t
i-alig
n
ment pe() and
.
.
.
commit
|
commitdiff
|
tree
2008-02-13
David
Hilvert
d2::tran
s
_
mult
i
:
:
use_
m
ulti: Check coordinate against
.
.
.
commit
|
commitdiff
|
tree
2008-02-12
D
avi
d
H
ilver
t
d2::trans
_
multi: Fi
x
compi
l
ation bug
s
.
commit
|
commitdiff
|
tree
2008-02-12
Dav
i
d Hilver
t
d2::trans_multi:
:
u
se_multi: A
d
d code to
g
ene
r
ate spatio
.
.
.
commit
|
commitdiff
|
tree
2008-02-12
Da
v
i
d
Hilvert
d2::trans_multi::se
t
_current_bo
u
nds:
Change
l
oo
p
f
o
r
.
.
.
commit
|
commitdiff
|
tree
2008-02-12
David Hil
v
e
rt
d2::tr
a
ns
_
multi: Mo
d
if
y
cert
a
in unsigne
d
i
n
t
t
o ind
e
x_t
.
commit
|
commitdiff
|
tree
2008-02-02
David Hilve
r
t
d2::trans_multi:
C
hange
the sort order
on the eleme
n
t
.
.
.
commit
|
commitdiff
|
tree
2008-02-01
David Hil
v
er
t
d2::t
r
ans_mu
l
ti: clean-
u
p edit
.
commit
|
commitdiff
|
tree
2008-01-31
David Hilvert
Re
s
olve c
o
m
pilation failure
s
.
commit
|
commitdiff
|
tree
2008-01-29
David Hilvert
d2::trans_multi:
Continue imp
l
ementation of the fi
x
ed
.
.
.
commit
|
commitdiff
|
tree
2008-01-27
David
H
ilv
e
r
t
d2::
t
rans_mul
t
i: Change
offset sto
r
age to point data
.
.
.
commit
|
commitdiff
|
tree
2008-01-27
D
av
i
d Hil
v
ert
d2
:
:tran
s
_multi: Add
s
torage for
of
f
set
v
alues
.
commit
|
commitdiff
|
tree
2008-01-26
David Hilv
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r
t
Fix compilation failures ari
s
ing from the privatiz
a
tion
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