organise directories in bboxes_labelling (#71)

SainsburyWellcomeCentre · Oct 30, 2023 · f7fe954 · f7fe954
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diff --git a/bboxes_labelling/run_additional_channel.sh → ...er_bash_scripts/run_additional_channel.sh b/bboxes_labelling/run_additional_channel.sh → ...er_bash_scripts/run_additional_channel.sh
diff --git a/bboxes_labelling/run_clip_video.sh → ...ng/cluster_bash_scripts/run_clip_video.sh b/bboxes_labelling/run_clip_video.sh → ...ng/cluster_bash_scripts/run_clip_video.sh
diff --git a/...s_labelling/run_frame_extraction_array.sh → ...ash_scripts/run_frame_extraction_array.sh b/...s_labelling/run_frame_extraction_array.sh → ...ash_scripts/run_frame_extraction_array.sh
diff --git a/bboxes_labelling/cluster_bash_scripts/run_frame_extraction_local.sh b/bboxes_labelling/cluster_bash_scripts/run_frame_extraction_local.sh
@@ -0,0 +1,45 @@
+#!/bin/bash
+
+CRABS_REPO_DIR=/Users/sofia/Documents_local/project_Zoo_crabs/crabs-exploration
+OUTPUT_DIR=$CRABS_REPO_DIR/data/crab_sample_data/sample_frames
+
+DATA_DIR=/Volumes/zoo/raw/CrabField/ramalhete_2021
+
+# -------------------
+# Run python script
+# -------------------
+python $CRABS_REPO_DIR"/bboxes labelling/extract_frames_to_label_w_sleap.py" \
+ $DATA_DIR/camera2/NINJAV_S001_S001_T001.MOV \
+ --output_path $OUTPUT_DIR \
+ --video_extensions MOV \
+ --initial_samples 10 \
+ --scale 0.75 \
+ --n_components 5 \
+ --n_clusters 5 \
+ --per_cluster 8 \
+
+# # create first output dir
+# # python $CRABS_REPO_DIR"/bboxes labelling/extract_frames_to_label_w_sleap.py" \
+# #  $CRABS_REPO_DIR/data/crab_sample_data/sample_clips \
+# #  --output_path $OUTPUT_DIR \
+# #  --video_extensions avi mp4 \
+# #  --initial_samples 300 \
+# #  --scale 0.75 \
+# #  --n_components 5 \
+# #  --n_clusters 5 \
+# #  --per_cluster 8 \
+# #  --compute_features_per_video
+
+
+# # extend previous one with this video
+# python $CRABS_REPO_DIR"/bboxes labelling/extract_frames_to_label_w_sleap.py" \
+#  $CRABS_REPO_DIR/data/cam2_NINJAV_S001_S001_T004_out_domain_sample.mp4 \
+#  --output_path $OUTPUT_DIR \
+#  --output_subdir "20230807_124723" \
+#  --video_extensions avi mp4 \
+#  --initial_samples 300 \
+#  --scale 0.75 \
+#  --n_components 5 \
+#  --n_clusters 5 \
+#  --per_cluster 8 \
+#  --compute_features_per_video
diff --git a/bboxes_labelling/ExtractFramesCluster.md → ..._labelling/guides/ExtractFramesCluster.md b/bboxes_labelling/ExtractFramesCluster.md → ..._labelling/guides/ExtractFramesCluster.md
diff --git a/bboxes_labelling/ManualLabellingSteps_dev.md → ...elling/guides/ManualLabellingSteps_dev.md b/bboxes_labelling/ManualLabellingSteps_dev.md → ...elling/guides/ManualLabellingSteps_dev.md
diff --git a/...labelling/ManualLabellingSteps_general.md → ...ng/guides/ManualLabellingSteps_general.md b/...labelling/ManualLabellingSteps_general.md → ...ng/guides/ManualLabellingSteps_general.md