diff --git "a/notebooks/lilabc_test-desert-lion.ipynb" "b/notebooks/lilabc_test-desert-lion.ipynb" new file mode 100644--- /dev/null +++ "b/notebooks/lilabc_test-desert-lion.ipynb" @@ -0,0 +1,1898 @@ +{ + "cells": [ + { + "cell_type": "code", + "execution_count": 1, + "metadata": {}, + "outputs": [], + "source": [ + "import pandas as pd\n", + "import seaborn as sns\n", + "\n", + "sns.set_style(\"whitegrid\")" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "Reading in our potential test sets from [here](https://huggingface.co/datasets/imageomics/lila-bc-camera/tree/d18307b285217d18b31d1a7b2c9091bb0873ade0/data/potential-test-sets):\n", + " - [Ohio Small Animals](https://lila.science/datasets/ohio-small-animals/)\n", + " - [Desert Lion Conservation Camera Traps](https://lila.science/datasets/desert-lion-conservation-camera-traps/)\n", + " - [Orinoquia Camera Traps](https://lila.science/datasets/orinoquia-camera-traps/)\n", + " - [Island Conservation Camera Traps](https://lila.science/datasets/island-conservation-camera-traps/)\n", + " - [ENA24](https://lila.science/datasets/ena24detection)\n", + "\n", + "We'll clean them down to just the taxa and identifier columns, then further reduce to make balanced test sets for each.\n", + "\n", + "# Desert Lion Conservation Camera Traps Datasets\n", + "upper/lower bounded and balanced" + ] + }, + { + "cell_type": "code", + "execution_count": 2, + "metadata": {}, + "outputs": [ + { + "data": { + "text/html": [ + "
\n", + " | dataset_name | \n", + "url_gcp | \n", + "url_aws | \n", + "url_azure | \n", + "image_id | \n", + "sequence_id | \n", + "location_id | \n", + "frame_num | \n", + "original_label | \n", + "scientific_name | \n", + "... | \n", + "superfamily | \n", + "family | \n", + "subfamily | \n", + "tribe | \n", + "genus | \n", + "species | \n", + "subspecies | \n", + "variety | \n", + "multi_species | \n", + "num_species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "NaN | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
1 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "NaN | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
2 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "NaN | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
3 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "NaN | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
4 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "NaN | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
5 rows × 34 columns
\n", + "\n", + " | dataset_name | \n", + "url_gcp | \n", + "url_aws | \n", + "url_azure | \n", + "image_id | \n", + "sequence_id | \n", + "location_id | \n", + "frame_num | \n", + "original_label | \n", + "scientific_name | \n", + "... | \n", + "superfamily | \n", + "family | \n", + "subfamily | \n", + "tribe | \n", + "genus | \n", + "species | \n", + "subspecies | \n", + "variety | \n", + "multi_species | \n", + "num_species | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
55164 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : pteroc... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "pteroclidae | \n", + "pteroclidae | \n", + "... | \n", + "NaN | \n", + "pteroclidae | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
55169 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : pteroc... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "pteroclidae | \n", + "pteroclidae | \n", + "... | \n", + "NaN | \n", + "pteroclidae | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
5772 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : cn-rap... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "cn-raptors | \n", + "aves | \n", + "... | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
55207 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : pteroc... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "pteroclidae | \n", + "pteroclidae | \n", + "... | \n", + "NaN | \n", + "pteroclidae | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "
4 rows × 34 columns
\n", + "\n", + " | dataset_name | \n", + "url_gcp | \n", + "url_aws | \n", + "url_azure | \n", + "image_id | \n", + "sequence_id | \n", + "location_id | \n", + "frame_num | \n", + "original_label | \n", + "scientific_name | \n", + "... | \n", + "family | \n", + "subfamily | \n", + "tribe | \n", + "genus | \n", + "species | \n", + "subspecies | \n", + "variety | \n", + "multi_species | \n", + "num_species | \n", + "num_sp_images | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "450.0 | \n", + "
1 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "450.0 | \n", + "
2 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "450.0 | \n", + "
3 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "450.0 | \n", + "
4 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "... | \n", + "felidae | \n", + "felinae | \n", + "NaN | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "NaN | \n", + "NaN | \n", + "False | \n", + "1.0 | \n", + "450.0 | \n", + "
5 rows × 35 columns
\n", + "\n", + " | dataset_name | \n", + "url_gcp | \n", + "url_aws | \n", + "url_azure | \n", + "image_id | \n", + "sequence_id | \n", + "location_id | \n", + "frame_num | \n", + "original_label | \n", + "scientific_name | \n", + "common_name | \n", + "kingdom | \n", + "phylum | \n", + "class | \n", + "order | \n", + "family | \n", + "genus | \n", + "species | \n", + "num_sp_images | \n", + "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "cheetah | \n", + "animalia | \n", + "chordata | \n", + "mammalia | \n", + "carnivora | \n", + "felidae | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "450.0 | \n", + "
1 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "cheetah | \n", + "animalia | \n", + "chordata | \n", + "mammalia | \n", + "carnivora | \n", + "felidae | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "450.0 | \n", + "
2 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "cheetah | \n", + "animalia | \n", + "chordata | \n", + "mammalia | \n", + "carnivora | \n", + "felidae | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "450.0 | \n", + "
3 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "cheetah | \n", + "animalia | \n", + "chordata | \n", + "mammalia | \n", + "carnivora | \n", + "felidae | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "450.0 | \n", + "
4 | \n", + "Desert Lion Conservation Camera Traps | \n", + "https://storage.googleapis.com/public-datasets... | \n", + "http://us-west-2.opendata.source.coop.s3.amazo... | \n", + "https://lilawildlife.blob.core.windows.net/lil... | \n", + "Desert Lion Conservation Camera Traps : acinon... | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "Desert Lion Conservation Camera Traps : unknown | \n", + "-1 | \n", + "acinonyx jubatus | \n", + "acinonyx jubatus | \n", + "cheetah | \n", + "animalia | \n", + "chordata | \n", + "mammalia | \n", + "carnivora | \n", + "felidae | \n", + "acinonyx | \n", + "acinonyx jubatus | \n", + "450.0 | \n", + "