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comparison image_learner.xml @ 21:d5c582cf74bc draft default tip

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planemo upload for repository https://github.com/goeckslab/gleam.git commit eed8c1e1d99a8a0c8f3a6bfdd8af48a5bfa19444
author goeckslab
date Tue, 20 Jan 2026 01:25:35 +0000
parents 64872c48a21f
children
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20:64872c48a21f 21:d5c582cf74bc
26 #import re 26 #import re
27 #if $input_csv 27 #if $input_csv
28 #set $sanitized_input_csv = re.sub('[^\w\-_\.]', '_', $input_csv.element_identifier.strip()) 28 #set $sanitized_input_csv = re.sub('[^\w\-_\.]', '_', $input_csv.element_identifier.strip())
29 ln -sf '$input_csv' "./${sanitized_input_csv}"; 29 ln -sf '$input_csv' "./${sanitized_input_csv}";
30 #end if 30 #end if
31 #set $TORCH_HOME = "./torch_cache";
32 mkdir -p "$TORCH_HOME";
31 33
32 #set $selected_validation_metric = "" 34 #set $selected_validation_metric = ""
33 #if $task_selection.task == "binary" 35 #if $task_selection.task == "binary"
34 #set $selected_validation_metric = $task_selection.validation_metric_binary 36 #set $selected_validation_metric = $task_selection.validation_metric_binary
35 #elif $task_selection.task == "classification" 37 #elif $task_selection.task == "classification"
87 #if $sample_id_column 89 #if $sample_id_column
88 --sample-id-column "$sample_id_column" 90 --sample-id-column "$sample_id_column"
89 #end if 91 #end if
90 --image-resize "$image_resize" 92 --image-resize "$image_resize"
91 --random-seed "$random_seed" 93 --random-seed "$random_seed"
94 --torch-home "$TORCH_HOME"
92 --output-dir "." && 95 --output-dir "." &&
93 96
94 mkdir -p '$output_model.extra_files_path' && 97 mkdir -p '$output_model.extra_files_path' &&
95 cp -r experiment_run/model/*.json experiment_run/model/model_weights '$output_model.extra_files_path' && 98 cp -r experiment_run/model/*.json experiment_run/model/model_weights '$output_model.extra_files_path' &&
96 99