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Size control of the 2D larva view

Merged François LAURENT requested to merge larva_view_for_macos into dev
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@@ -29,7 +29,7 @@ import|merge|train|predict|--version|-V)
@@ -29,7 +29,7 @@ import|merge|train|predict|--version|-V)
LarvaTagger
LarvaTagger
Usage:
Usage:
larvatagger open <file-path> [--backends=<path>] [--port=<number>] [--quiet] [--viewer] [--browser] [--manual-label=<label>] [--segment=<t0,t1>]
larvatagger open <file-path> [--backends=<path>] [--port=<number>] [--quiet] [--viewer] [--browser] [--view-factor=<real>] [--manual-label=<label>]
larvatagger import <input-path> [<output-file>] [--id=<id>] [--framerate=<fps>] [--pixelsize=<μm>] [--overrides=<comma-separated-list>] [--default-label=<label>] [--manual-label=<label>] [--decode] [--copy-labels]
larvatagger import <input-path> [<output-file>] [--id=<id>] [--framerate=<fps>] [--pixelsize=<μm>] [--overrides=<comma-separated-list>] [--default-label=<label>] [--manual-label=<label>] [--decode] [--copy-labels]
larvatagger 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 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 train <backend-path> <data-path> <model-instance> --fine-tune=<instance> [--balancing-strategy=<strategy>] [--manual-label=<label>] [--iterations=<N>] [--seed=<seed>]
larvatagger train <backend-path> <data-path> <model-instance> --fine-tune=<instance> [--balancing-strategy=<strategy>] [--manual-label=<label>] [--iterations=<N>] [--seed=<seed>]
@@ -39,26 +39,27 @@ Usage:
@@ -39,26 +39,27 @@ Usage:
larvatagger -h | --help
larvatagger -h | --help
Options:
Options:
-h --help Show this screen.
-h --help Show this screen.
-V --version Show version.
-V --version Show version.
-q --quiet Do not show instructions.
-q --quiet Do not show instructions.
--id=<id> Run or assay ID, e.g. `date_time`.
--id=<id> Run or assay ID, e.g. `date_time`.
--framerate=<fps> Camera frame rate, in frames per second.
--framerate=<fps> Camera frame rate, in frames per second.
--pixelsize=<μm> Camera pixel size, in micrometers.
--pixelsize=<μm> Camera pixel size, in micrometers.
--backends=<path> Path to backend repository.
--backends=<path> Path to backend repository.
--port=<number> Port number the server listens to.
--port=<number> Port number the server listens to.
--viewer Disable editing capabilities.
--viewer Disable editing capabilities.
--browser Automatically open a browser tab at the served location.
--browser Automatically open a browser tab at the served location.
--make-dataset Perform the make_dataset stage prior to proceeding to predict_model.
--view-factor=<real> Scaling factor for the larva views; default is 2 on macOS, 1 elsewhere.
--skip-make-dataset Skip the make_dataset stage (default behavior since TaggingBackends==0.10).
--make-dataset Perform the make_dataset stage prior to proceeding to predict_model.
--data-isolation Isolate the backend data directories for parallel tagging of multiple data files.
--skip-make-dataset Skip the make_dataset stage (default behavior since TaggingBackends==0.10).
--sample-size=<N> Sample only N track segments from the data repository.
--data-isolation Isolate the backend data directories for parallel tagging of multiple data files.
--layers=<N> (MaggotUBA) Number of layers of the classifier.
--sample-size=<N> Sample only N track segments from the data repository.
--iterations=<N> (MaggotUBA) Number of training iterations (can be two integers separated by a comma).
--layers=<N> (MaggotUBA) Number of layers of the classifier.
--seed=<seed> Seed for the backend's random number generators.
--iterations=<N> (MaggotUBA) Number of training iterations (can be two integers separated by a comma).
--segment=<t0,t1> Start and end times (included, comma-separated) for cropping and including tracks.
--seed=<seed> Seed for the backend's random number generators.
--decode Do not encode the labels into integer indices.
--segment=<t0,t1> Start and end times (included, comma-separated) for cropping and including tracks.
--copy-labels Replicate discrete behavior data from the input file.
--decode Do not encode the labels into integer indices.
 
--copy-labels Replicate discrete behavior data from the input file.
--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].
--labels=<comma-separated-list> Comma-separated list of behavior tags/labels.
--labels=<comma-separated-list> Comma-separated list of behavior tags/labels.
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