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Change --gs-mo default to 67%.
2007-04-19
David
H
i
l
vert
Change --gs-mo default to 67
%
.
commit
|
commitdiff
|
tree
2007-04-19
D
avid Hilvert
ui: Log output enhancements
.
commit
|
commitdiff
|
tree
2007-04-19
David Hil
v
ert
Allow
-
-gs-mo to be s
p
ecified as
a
p
e
rcenta
g
e,
m
ake
.
.
.
commit
|
commitdiff
|
tree
2007-04-19
Davi
d
Hilvert
d2::align: Mod
i
fy
_al
i
g
n
() and make_element_nontrivi
a
l
.
.
.
commit
|
commitdiff
|
tree
2007-04-19
Dav
i
d Hilver
t
d2::align
:
Add meth
o
d get_per
t
urb_s
e
t()
.
commit
|
commitdiff
|
tree
2007-04-17
David
Hilvert
Add file 'VERSIO
N
'
for
c
a
ses where this does
not
exist
.
commit
|
commitdiff
|
tree
2007-04-17
D
a
vid
H
ilvert
d2
:
:tran
s
_mu
l
ti
:
:speci
f
ic_rescale(): Replace as
s
ertion
.
.
.
commit
|
commitdiff
|
tree
2007-04-17
David H
i
lvert
Changelog e
d
its
.
commit
|
commitdiff
|
tree
2007-04-17
David
Hilvert
Upd
a
te cha
n
g
e
l
o
g
commit
|
commitdiff
|
tree
2007-04-17
David Hil
v
e
r
t
Add file u
i
_quiet
.
h
.
commit
|
commitdiff
|
tree
2007-04-17
D
a
vid Hilvert
configure
.
in: Use contents of fi
l
e
V
ERSION for versio
n
.
.
.
commit
|
commitdiff
|
tree
2007-04-16
David Hilvert
Modify blac
k
level im
p
lementat
i
on to always a
p
p
ly to
.
.
.
commit
|
commitdiff
|
tree
2007-04-16
David Hilvert
Add 'qu
i
et' user
interfac
e
typ
e
.
commit
|
commitdiff
|
tree
2007-04-16
Da
v
i
d
Hilvert
Move outpu
t
ide
n
tifi
c
a
tion de
t
ai
l
s t
o
user i
n
t
erface
.
commit
|
commitdiff
|
tree
2007-04-16
Dav
i
d Hi
l
vert
ui_log::ip_step_
d
o
n
e():
'
Fin
i
shed
frame
'
--> 'Finish
e
d
.
.
.
commit
|
commitdiff
|
tree
2007-04-16
Davi
d
Hilv
e
rt
Refi
n
e
ui_l
o
g::ip
_
step_done()
.
commit
|
commitdiff
|
tree
2007-04-15
D
avid Hil
v
ert
d2/pp
m
.
h
:
Do
n
't set gain values i
f
none are
specified
.
.
.
commit
|
commitdiff
|
tree
2007-04-15
D
avid Hilv
e
rt
u
i
_log: A
d
d se
p
arate output for match and
mismatch
.
.
.
commit
|
commitdiff
|
tree
2007-04-15
David Hilver
t
ui_l
o
g
: Add mor
e
logg
i
ng out
p
ut
.
commit
|
commitdiff
|
tree
2007-04-15
Da
v
id Hi
l
ver
t
A
dd rudimentary logging interface
.
commit
|
commitdiff
|
tree
2007-04-15
David
Hilvert
u
i: Indi
c
ate wh
e
n no local alignment detail
s
are availa
b
le
.
commit
|
commitdiff
|
tree
2007-04-14
David Hilvert
d2::tran
s
_mul
t
i::sp
e
c
ific_rescale(): Add a
n
assert
.
.
.
commit
|
commitdiff
|
tree
2007-04-13
D
avid Hilvert
Begin im
p
lementing d2::
a
li
g
n::calculat
e
_element
_
region()
.
commit
|
commitdiff
|
tree
2007-04-13
David Hi
l
vert
d2
:
:align:
:
_align(): Add cod
e
to store to and
retrieve
.
.
.
commit
|
commitdiff
|
tree
2007-04-09
David Hilvert
Add co
d
e to recalc
u
late each non
-
tr
i
via
l
non-primary
.
.
.
commit
|
commitdiff
|
tree
2007-04-09
David Hilvert
Ad
d
lo
c
al
_
ax_count to t
h
e
li
s
t of
p
a
rameters t
a
ken
.
.
.
commit
|
commitdiff
|
tree
2007-04-09
David
Hil
v
ert
Change barrel
d
istortion multip
l
ier
and rate of change
.
.
.
commit
|
commitdiff
|
tree
2007-04-08
David Hi
l
ver
t
Add
m
ethods d2::alig
n
::ma
k
e
_
e
leme
n
t
_
n
ontrivial(
)
, d2
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David H
i
lver
t
d
2
::ali
g
n::f
o
llow
(
):
R
evert looping ove
r
old
_
* element
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David Hilvert
d2::a
l
i
gn::follow(): Up
d
ate element
indices
of a
l
l
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David Hilvert
d2::tfile: Bugf
i
x in
handlin
g
of non-p
r
imary el
e
ments
.
commit
|
commitdiff
|
tree
2007-04-03
David
H
i
lvert
Copyrigh
t
no
t
ice updates
.
commit
|
commitdiff
|
tree
2007-04-03
David Hilvert
Add co
d
e
for loading an
d
sav
i
n
g
non-primary alignment
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David Hilver
t
Upd
a
te chan
g
e
log
.
commit
|
commitdiff
|
tree
2007-04-03
Dav
i
d
Hilver
t
ui: M
o
d
i
fy match format strings to pro
v
ide consta
n
t
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David
Hilvert
u
i
_tty: Add
f
ield w
i
dth and precis
i
on spe
c
ifiers
t
o
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David Hilvert
Swap arg
u
me
n
ts to ali
g
nm
e
nt s
t
atus so that
frequent
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David Hil
v
ert
ui_tty:
C
hange floatin
g
point
formats from %f to %g
.
.
.
commit
|
commitdiff
|
tree
2007-04-03
David Hilvert
d2::
a
l
ign: Move following logic from
_
ali
g
n
(
) to a
.
.
.
commit
|
commitdiff
|
tree
2007-04-02
David
H
ilver
t
Upda
t
e changelog
commit
|
commitdiff
|
tree
2007-04-02
Da
v
i
d Hilvert
Remove file
'
sgauss
.
h' mi
s
s
i
ng from sgauss patch
,
as
.
.
.
commit
|
commitdiff
|
tree
2007-04-02
David Hilvert
A
dd missing
fi
l
e
f
r
om earlier sgaus
s
patch
.
W
ill be
.
.
.
commit
|
commitdiff
|
tree
2007-04-02
David Hilvert
Update
cha
n
g
elog
commit
|
commitdiff
|
tree
2007-04-02
David Hilvert
Update ch
a
ng
e
log
commit
|
commitdiff
|
tree
2007-04-02
D
av
i
d Hilvert
Move the multi-tr
a
nsformatio
n
e
l
e
m
ent s
w
itching loop
.
.
.
commit
|
commitdiff
|
tree
2007-04-02
David Hilve
r
t
Update Changelo
g
commit
|
commitdiff
|
tree
2007-04-02
Dav
i
d Hilvert
d
2/a
l
i
gn
.
h
:
R
eca
l
culate diff statistics after inc
r
easing
.
.
.
commit
|
commitdiff
|
tree
2007-04-01
D
a
v
id H
i
lver
t
Mod
i
fy ha
n
dlin
g
of -
-
i
d
entit
y
in d2:
:
align so that
.
.
.
commit
|
commitdiff
|
tree
2007-04-01
David
H
i
l
v
er
t
Add met
h
ods for enabling and disabling restrict
e
d
support
.
.
.
commit
|
commitdiff
|
tree
2007-04-01
David Hilv
e
rt
A
dd
c
heck for transformatio
n
support to d2::align:
.
.
.
commit
|
commitdiff
|
tree
2007-04-01
Da
v
id Hilvert
d2::
t
ra
n
s
_multi: Add method supporte
d
() to check for
.
.
.
commit
|
commitdiff
|
tree
2007-03-29
D
avid H
i
lve
r
t
Begin using
n
on-tri
v
ial multi-transformati
o
ns in d2
.
.
.
commit
|
commitdiff
|
tree
2007-03-29
David Hilvert
d2:
:
tran
s
_multi:
Add get_ele
m
ent()
m
ethod
.
commit
|
commitdiff
|
tree
2007-03-27
D
a
vid Hi
l
ver
t
d
2::
r
ender::ipc: Modify alloc
a
tion
for subdomain arguments
.
.
.
commit
|
commitdiff
|
tree
2007-03-24
David Hilvert
d2::al
i
gn: Allocate kept
_
t with new[] rather
t
han mallo
c
.
.
.
commit
|
commitdiff
|
tree
2007-03-23
David Hilv
e
rt
Modify specif
i
c_*
(
) calls in d2::t
r
ans
_
multi
t
o c
a
ll
.
.
.
commit
|
commitdiff
|
tree
2007-03-23
David Hilvert
Allocate
d2:
:
incremental:
:
s
u
bdomain_arg
s
with new[
.
.
.
commit
|
commitdiff
|
tree
2007-03-23
David Hilver
t
Res
o
lve
c
ertain com
p
i
l
atio
n
and
run-time fai
l
ures
.
commit
|
commitdiff
|
tree
2007-03-23
David Hilv
e
rt
d
2::t
r
ans_multi: Update met
h
ods for
a
t
rivial mult
i
.
.
.
commit
|
commitdiff
|
tree
2007-03-23
D
a
v
id Hilv
e
r
t
I
n
i
tial
v
ers
i
on
o
f d2/trans_
m
ulti
.
h
,
taken from the
.
.
.
commit
|
commitdiff
|
tree
2007-03-23
Dav
i
d H
i
l
v
ert
A
dd file d
2
/trans
_
s
ingle
.
h
for implementing single
.
.
.
commit
|
commitdiff
|
tree
2007-03-21
D
avid Hilvert
Move s
i
ngle-transformation cla
s
s specifics from d2
.
.
.
commit
|
commitdiff
|
tree
2007-03-17
Dav
i
d
Hil
v
ert
d2/tra
n
s_abstract
.
h: Ini
t
ial im
p
leme
n
tation of an abstr
a
ct
.
.
.
commit
|
commitdiff
|
tree
2007-03-17
David
H
ilvert
d2/tfile
.
h: Ca
l
l
un
g
et
c
()
w
hen test
f
or non-primary
.
.
.
commit
|
commitdiff
|
tree
2007-03-15
David
H
ilvert
R
e
v
i
s
e handling of MA elem
e
nts
.
commit
|
commitdiff
|
tree
2007-03-15
David H
i
l
v
ert
Modify --ma-card to range
[1,inf) and add c
o
de to iterate
.
.
.
commit
|
commitdiff
|
tree
2007-03-14
Da
v
i
d
H
i
lv
e
rt
Add flags
to d2::align::element_t and d2:;tf
i
le to
.
.
.
commit
|
commitdiff
|
tree
2007-03-14
David Hi
l
vert
ui/ui
_
tty
.
h:
Revise u
p
da
t
e(
)
and up
d
a
t
e_loop()
s
o th
a
t
.
.
.
commit
|
commitdiff
|
tree
2007-03-13
David Hilv
e
rt
ui/ui_tty
.
h: Add a UI update th
r
ead
.
commit
|
commitdiff
|
tree
2007-03-13
Da
v
id Hilver
t
d2::alig
n
: exp
a
nd a
n
d
r
ename the data structur
e
for
.
.
.
commit
|
commitdiff
|
tree
2007-03-13
D
a
v
i
d Hilver
t
d2::align:
M
ake a structure for
follow semantics variables
.
.
.
commit
|
commitdiff
|
tree
2007-03-12
David Hilvert
Add opt
i
on handli
n
g for --ma-card
a
nd --ma-con
t
multi
.
.
.
commit
|
commitdiff
|
tree
2007-03-10
D
avid Hilvert
U
p
date changelog
commit
|
commitdiff
|
tree
2007-03-10
D
a
v
i
d
Hilve
r
t
U
p
date
h
elp text to reflect new file-scoped opt
i
ons
.
commit
|
commitdiff
|
tree
2007-03-10
David Hi
l
vert
Allow file-
s
co
p
ed --gs and --gs
-
m
o
commit
|
commitdiff
|
tree
2007-03-09
Davi
d
Hilvert
U
p
date change
l
og
commit
|
commitdiff
|
tree
2007-03-09
D
a
vid H
i
l
vert
Ignore f
e
x
regions
w
he
n
n
ex is specified
.
commit
|
commitdiff
|
tree
2007-03-09
David Hilve
r
t
Update ch
a
ngelog
commit
|
commitdiff
|
tree
2007-03-09
David
Hilvert
A
d
d --black
o
p
t
ion for
setti
n
g black level
.
commit
|
commitdiff
|
tree
2007-03-08
Da
v
id Hilvert
Add opt
i
on --ev for
setting exposure value meta-da
t
a
.
commit
|
commitdiff
|
tree
2007-03-08
Da
v
id Hilve
r
t
D
i
sable implica
t
i
o
n for
--exp-register when --cx is
.
.
.
commit
|
commitdiff
|
tree
2007-03-07
David Hilvert
Modify p
r
o
file local ali
g
nmen
t
detail output to o
m
i
t
.
.
.
commit
|
commitdiff
|
tree
2007-03-07
David
Hilve
r
t
Update cha
n
ge
l
og
commit
|
commitdiff
|
tree
2007-03-07
David Hilvert
Upd
a
te p
r
o
filing
timers to i
n
clude timing details for
.
.
.
commit
|
commitdiff
|
tree
2007-03-07
David Hilver
t
d2/
p
pm
.
h:
U
pdate error message for non-PPM files to
.
.
.
commit
|
commitdiff
|
tree
2007-03-04
David Hilvert
Update NEWS and version numbers
for 0
.
8
.
7 re
l
ease
.
commit
|
commitdiff
|
tree
2007-03-03
Dav
i
d Hilv
e
rt
Up
d
a
t
e change
l
o
g
.
commit
|
commitdiff
|
tree
2007-03-03
D
a
vid Hilvert
Make --ip-now
l
de
f
a
u
lt
.
commit
|
commitdiff
|
tree
2007-02-25
David Hilvert
Upda
t
e changelog
.
commit
|
commitdiff
|
tree
2007-02-25
David
Hilv
e
rt
Revise argument han
d
l
ing for ip-wl
arguments
.
commit
|
commitdiff
|
tree
2007-02-25
Da
v
id H
i
lvert
Implem
e
nt Irani-Pe
l
e
g
weig
h
t
l
i
m
its, an
d
set a default
.
.
.
commit
|
commitdiff
|
tree
2007-02-25
David
H
ilvert
Update Changelog
commit
|
commitdiff
|
tree
2007-02-25
David Hilvert
Add an incremental ren
d
erer mean invariant weight-limit
e
d
.
.
.
commit
|
commitdiff
|
tree
2007-02-24
Dav
i
d Hilvert
d2::filter:
:
scaled_filter::filter_channe
l
(): Slightly
.
.
.
commit
|
commitdiff
|
tree
2007-02-24
D
a
v
i
d Hil
v
ert
Update chan
g
el
o
g
commit
|
commitdiff
|
tree
2007-02-24
David Hilvert
d2::image::def
i
ned_scal
e
_
b
y_half(): R
e
place
i
ncorre
c
t
.
.
.
commit
|
commitdiff
|
tree
2007-02-24
David Hilvert
d2::image::defined_scale_by
_
h
alf():
U
se geometric mea
n
.
.
.
commit
|
commitdiff
|
tree
2007-02-17
David Hilvert
d2/filter/scaled_f
i
lter
.
h:
C
lean u
p
r
ec
e
n
tly added
.
.
.
commit
|
commitdiff
|
tree
2007-02-17
Da
v
id Hil
v
ert
d2/filter/sc
a
led_filte
r
.
h:
R
evise certainty calculatio
n
s
.
.
.
commit
|
commitdiff
|
tree
2007-02-17
D
a
vid Hilvert
NEWS:
a
dd 0
.
8
.
6
re
l
ease information
commit
|
commitdiff
|
tree
next