Skip to content
GitLab
Explore
Sign in
Primary navigation
Search or go to…
Project
L
LarvaTagger.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
Nyx
LarvaTagger.jl
Commits
cb160e34
Commit
cb160e34
authored
2 years ago
by
François LAURENT
Browse files
Options
Downloads
Patches
Plain Diff
version increment
parent
bb382a09
No related branches found
No related tags found
No related merge requests found
Pipeline
#102594
passed
2 years ago
Stage: test
Changes
2
Pipelines
3
Hide whitespace changes
Inline
Side-by-side
Showing
2 changed files
Project.toml
+1
-1
1 addition, 1 deletion
Project.toml
scripts/larvatagger.jl
+4
-2
4 additions, 2 deletions
scripts/larvatagger.jl
with
5 additions
and
3 deletions
Project.toml
+
1
−
1
View file @
cb160e34
name
=
"LarvaTagger"
name
=
"LarvaTagger"
uuid
=
"8b3b36f1-dfed-446e-8561-ea19fe966a4d"
uuid
=
"8b3b36f1-dfed-446e-8561-ea19fe966a4d"
authors
=
[
"François Laurent"
,
"Institut Pasteur"
]
authors
=
[
"François Laurent"
,
"Institut Pasteur"
]
version
=
"0.14"
version
=
"0.14
.1
"
[deps]
[deps]
Colors
=
"5ae59095-9a9b-59fe-a467-6f913c188581"
Colors
=
"5ae59095-9a9b-59fe-a467-6f913c188581"
...
...
This diff is collapsed.
Click to expand it.
scripts/larvatagger.jl
+
4
−
2
View file @
cb160e34
...
@@ -25,8 +25,8 @@ LarvaTagger.jl
...
@@ -25,8 +25,8 @@ LarvaTagger.jl
Usage
:
Usage
:
larvatagger
.
jl
open
<
file
-
path
>
[
--
backends
=<
path
>
]
[
--
port
=<
number
>
]
[
--
quiet
]
[
--
viewer
]
[
--
browser
]
[
--
manual
-
label
=<
label
>
]
larvatagger
.
jl
open
<
file
-
path
>
[
--
backends
=<
path
>
]
[
--
port
=<
number
>
]
[
--
quiet
]
[
--
viewer
]
[
--
browser
]
[
--
manual
-
label
=<
label
>
]
larvatagger
.
jl
import
<
input
-
path
>
[
<
output
-
file
>
]
[
--
id
=<
id
>
]
[
--
framerate
=<
fps
>
]
[
--
pixelsize
=<
μm
>
]
[
--
overrides
=<
comma
-
separated
-
list
>
]
[
--
default
-
label
=<
label
>
]
[
--
manual
-
label
=<
label
>
]
[
--
decode
]
larvatagger
.
jl
import
<
input
-
path
>
[
<
output
-
file
>
]
[
--
id
=<
id
>
]
[
--
framerate
=<
fps
>
]
[
--
pixelsize
=<
μm
>
]
[
--
overrides
=<
comma
-
separated
-
list
>
]
[
--
default
-
label
=<
label
>
]
[
--
manual
-
label
=<
label
>
]
[
--
decode
]
larvatagger
.
jl
train
<
backend
-
path
>
<
data
-
path
>
<
model
-
instance
>
[
--
pretrained
-
model
=<
instance
>
]
[
--
labels
=<
comma
-
separated
-
list
>
]
[
--
sample
-
size
=<
N
>
]
[
--
balancing
-
strategy
=<
strategy
>
]
[
--
class
-
weights
=<
csv
>
]
[
--
manual
-
label
=<
label
>
]
[
--
layers
=<
N
>
]
[
--
iterations
=<
N
>
]
larvatagger
.
jl
train
<
backend
-
path
>
<
data
-
path
>
<
model
-
instance
>
[
--
pretrained
-
model
=<
instance
>
]
[
--
labels
=<
comma
-
separated
-
list
>
]
[
--
sample
-
size
=<
N
>
]
[
--
balancing
-
strategy
=<
strategy
>
]
[
--
class
-
weights
=<
csv
>
]
[
--
manual
-
label
=<
label
>
]
[
--
layers
=<
N
>
]
[
--
iterations
=<
N
>
]
[
--
seed
=<
seed
>
]
larvatagger
.
jl
predict
<
backend
-
path
>
<
model
-
instance
>
<
data
-
path
>
[
--
make
-
dataset
]
[
--
skip
-
make
-
dataset
]
[
--
data
-
isolation
]
larvatagger
.
jl
predict
<
backend
-
path
>
<
model
-
instance
>
<
data
-
path
>
[
--
output
=<
filename
>
]
[
--
make
-
dataset
]
[
--
skip
-
make
-
dataset
]
[
--
data
-
isolation
]
larvatagger
.
jl
merge
<
input
-
path
>
<
input
-
file
>
[
<
output
-
file
>
]
[
--
manual
-
label
=<
label
>
]
[
--
decode
]
larvatagger
.
jl
merge
<
input
-
path
>
<
input
-
file
>
[
<
output
-
file
>
]
[
--
manual
-
label
=<
label
>
]
[
--
decode
]
larvatagger
.
jl
-
V
|
--
version
larvatagger
.
jl
-
V
|
--
version
larvatagger
.
jl
-
h
|
--
help
larvatagger
.
jl
-
h
|
--
help
...
@@ -48,6 +48,7 @@ Options:
...
@@ -48,6 +48,7 @@ Options:
--
sample
-
size
=<
N
>
Sample
only
N
track
segments
from
the
data
repository
.
--
sample
-
size
=<
N
>
Sample
only
N
track
segments
from
the
data
repository
.
--
layers
=<
N
>
(
MaggotUBA
)
Number
of
layers
of
the
classifier
.
--
layers
=<
N
>
(
MaggotUBA
)
Number
of
layers
of
the
classifier
.
--
iterations
=<
N
>
(
MaggotUBA
)
Number
of
training
iterations
(
can
be
two
integers
separated
by
a
comma
)
.
--
iterations
=<
N
>
(
MaggotUBA
)
Number
of
training
iterations
(
can
be
two
integers
separated
by
a
comma
)
.
--
seed
=<
seed
>
Seed
for
the
backend
'
s
random
number
generators
.
--
decode
Do
not
encode
the
labels
into
integer
indices
.
--
decode
Do
not
encode
the
labels
into
integer
indices
.
--
default
-
label
=<
label
>
Label
all
untagged
data
as
<
label
>.
--
default
-
label
=<
label
>
Label
all
untagged
data
as
<
label
>.
--
manual
-
label
=<
label
>
Secondary
label
for
manually
labelled
data
[
default
:
edited
]
.
--
manual
-
label
=<
label
>
Secondary
label
for
manually
labelled
data
[
default
:
edited
]
.
...
@@ -56,6 +57,7 @@ Options:
...
@@ -56,6 +57,7 @@ Options:
--
pretrained
-
model
=<
instance
>
Name
of
the
pretrained
encoder
(
from
`pretrained_models`
registry
)
.
--
pretrained
-
model
=<
instance
>
Name
of
the
pretrained
encoder
(
from
`pretrained_models`
registry
)
.
--
balancing
-
strategy
=<
strategy
>
Any
of
`auto`
,
`maggotuba`
,
`none`
[
default
:
auto
]
.
--
balancing
-
strategy
=<
strategy
>
Any
of
`auto`
,
`maggotuba`
,
`none`
[
default
:
auto
]
.
--
overrides
=<
comma
-
separated
-
list
>
Comma
-
separated
list
of
key
:
value
pairs
.
--
overrides
=<
comma
-
separated
-
list
>
Comma
-
separated
list
of
key
:
value
pairs
.
-
o
<
filename
>
--
output
=<
filename
>
Predicted
labels
filename
.
Commands
:
Commands
:
...
...
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