Skip to content
GitLab
Explore
Sign in
Primary navigation
Search or go to…
Project
M
MRIBuilder.jl
Manage
Activity
Members
Labels
Plan
Issues
Issue boards
Milestones
Wiki
Code
Merge requests
Repository
Branches
Commits
Tags
Repository graph
Compare revisions
Snippets
Build
Pipelines
Jobs
Pipeline schedules
Artifacts
Deploy
Releases
Package Registry
Container Registry
Model registry
Operate
Environments
Terraform modules
Monitor
Incidents
Analyze
Value stream analytics
Contributor analytics
CI/CD analytics
Repository analytics
Model experiments
Help
Help
Support
GitLab documentation
Compare GitLab plans
Community forum
Contribute to GitLab
Provide feedback
Keyboard shortcuts
?
Snippets
Groups
Projects
Show more breadcrumbs
Michiel Cottaar
MRIBuilder.jl
Commits
ecb521aa
Unverified
Commit
ecb521aa
authored
2 months ago
by
Michiel Cottaar
Browse files
Options
Downloads
Patches
Plain Diff
ENH: add compression to pulseq output
parent
f1f72c94
No related branches found
Branches containing commit
No related tags found
1 merge request
!17
Compressed pulseq
Changes
2
Hide whitespace changes
Inline
Side-by-side
Showing
2 changed files
src/sequence_io/pulseq_io/parsers/shapes.jl
+36
-3
36 additions, 3 deletions
src/sequence_io/pulseq_io/parsers/shapes.jl
test/test_IO.jl
+16
-0
16 additions, 0 deletions
test/test_IO.jl
with
52 additions
and
3 deletions
src/sequence_io/pulseq_io/parsers/shapes.jl
+
36
−
3
View file @
ecb521aa
struct
CompressedPulseqShape
num
::
Int
samples
::
Vector
{
Float64
}
samples
::
Vector
{
Number
}
end
...
...
@@ -57,14 +57,47 @@ function uncompress(compressed::CompressedPulseqShape)
return
PulseqShape
(
amplitudes
)
end
function
compress
(
shape
::
PulseqShape
)
amplitudes
=
shape
.
samples
derivative
=
amplitudes
[
2
:
end
]
-
amplitudes
[
1
:
end
-
1
]
current_value
=
amplitudes
[
1
]
compressed
=
Number
[
amplitudes
[
1
]]
nrepeats
=
-
1
for
sample
in
derivative
if
sample
≈
current_value
nrepeats
+=
1
if
iszero
(
nrepeats
)
push!
(
compressed
,
current_value
)
end
else
if
nrepeats
!=
-
1
push!
(
compressed
,
nrepeats
)
nrepeats
=
-
1
end
current_value
=
sample
push!
(
compressed
,
current_value
)
end
end
if
nrepeats
>=
0
push!
(
compressed
,
nrepeats
)
end
if
length
(
compressed
)
>=
length
(
amplitudes
)
return
CompressedPulseqShape
(
length
(
amplitudes
),
amplitudes
)
else
return
CompressedPulseqShape
(
length
(
amplitudes
),
compressed
)
end
end
function
gen_section
(
comp
::
PulseqComponents
,
::
Val
{
:
shapes
})
res
=
PulseqSection
{
:
shapes
}(
String
[])
for
index
in
sort
([
keys
(
comp
.
shapes
)
...
])
shape
=
comp
.
shapes
[
index
]
shape
=
compress
(
comp
.
shapes
[
index
]
)
append!
(
res
.
content
,
[
""
,
"shape_id
$
index"
,
"num_samples
$
(
length(shape.samples)
)"
"num_samples
$
(
shape.num
)"
])
for
sample
in
shape
.
samples
push!
(
res
.
content
,
string
(
sample
))
...
...
This diff is collapsed.
Click to expand it.
test/test_IO.jl
+
16
−
0
View file @
ecb521aa
...
...
@@ -128,4 +128,20 @@
end
end
end
@testset
"Test Pulseq shape compression"
begin
import
MRIBuilder
.
SequenceIO
.
PulseqIO
.
Parsers
:
compress
,
uncompress
import
MRIBuilder
.
SequenceIO
.
PulseqIO
.
Types
:
PulseqShape
for
(
amplitudes
,
result
)
in
[
([
0.
,
0.1
,
0.25
,
0.5
,
ones
(
7
)
...
,
0.75
,
0.5
,
0.25
,
0.
],
[
0.
,
0.1
,
0.15
,
0.25
,
0.5
,
0.
,
0.
,
4
,
-
0.25
,
-
0.25
,
2
]),
(
zeros
(
100
),
[
0.
,
0.
,
98
]),
(
ones
(
100
),
[
1.
,
0.
,
0.
,
97
]),
]
shape
=
PulseqShape
(
amplitudes
)
res
=
compress
(
shape
)
@test
res
.
num
==
length
(
amplitudes
)
@test
all
(
res
.
samples
==
result
)
@test
all
(
uncompress
(
res
)
.
samples
==
amplitudes
)
end
end
end
\ No newline at end of file
This diff is collapsed.
Click to expand it.
Preview
0%
Loading
Try again
or
attach a new file
.
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Save comment
Cancel
Please
register
or
sign in
to comment