v1.0.0

README.md

@@ -0,0 +1,52 @@
+---
+tags:
+- lora
+- peft
+- adapters
+- mistral
+- biomedical
+library_name: peft
+pipeline_tag: text-classification
+license: apache-2.0
+base_model: mistralai/Mistral-7B-Instruct-v0.3
+model-index:
+- name: MetappuccinoLLModel v1.0.0
+  results: []
+---
+
+# MetappuccinoLLModel — Per-category LoRA adapters for SRA metadata extraction
+
+**LoRA adapters (one folder per category)** trained for **SRA metadata extraction and inference** in the [Metappuccino project](https://github.com/chumphati/Metappuccino). These adapters not general-purpose dialogue models.
+
+**Important**: Base model weights are **not included**. Also download the official base model: `mistralai/Mistral-7B-Instruct-v0.3` to use Metappuccino.
+
+
+### Version
+
+v1.0.0
+
+### Quickstart
+
+Download for Metappuccino use:
+```python
+from huggingface_hub import snapshot_download
+
+snapshot_download(
+    repo_id="chumphati/MetappuccinoLLModel",
+    local_dir="<OUT_DIR_URL>/MetappuccinoLLModel", #path to the output directory
+    resume_download=True,
+    max_workers=4
+)
+```
+
+### Hyperparameters
+
+All information about the hyperparameters is provided for each adapter in its respective folder, in the adapter_config.json files.
+
+### How to cite
+
+If you use this repository in your work, please cite:
+
+
+
+Related tool: Metappuccino — https://github.com/chumphati/Metappuccino

cat_age/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "q_proj",
+    "k_proj",
+    "down_proj",
+    "up_proj",
+    "gate_proj",
+    "o_proj",
+    "v_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_age/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:db3cecf27feb29c0e08771bb050bf2ee41964661a2abee8f31ca58cec07fcb8a
+size 704719768

cat_age/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_age/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_age/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_age/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404

cat_biopsy_site/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "gate_proj",
+    "up_proj",
+    "k_proj",
+    "o_proj",
+    "down_proj",
+    "q_proj",
+    "v_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_biopsy_site/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:6466aa9c8c8c11bff9c02fdfed6073948767e099b9f979dc4ce74aa1f0eee261
+size 704719768

cat_biopsy_site/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_biopsy_site/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_biopsy_site/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_biopsy_site/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404

cat_biopsy_type/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "o_proj",
+    "gate_proj",
+    "q_proj",
+    "k_proj",
+    "down_proj",
+    "up_proj",
+    "v_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_biopsy_type/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:aa69886aa0e00fbdde83081506b0bab4eb88efce80c8085e3059569d72c7dadc
+size 704719768

cat_biopsy_type/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_biopsy_type/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_biopsy_type/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_biopsy_type/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404

cat_cell_line/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "q_proj",
+    "k_proj",
+    "gate_proj",
+    "v_proj",
+    "down_proj",
+    "up_proj",
+    "o_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_cell_line/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:65acc3dcfeed88dcc303cbbd2d11ca85f918c4617907b249eb1a043ad6da42a5
+size 704719768

cat_cell_line/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_cell_line/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_cell_line/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_cell_line/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404

cat_cell_type/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "v_proj",
+    "q_proj",
+    "gate_proj",
+    "up_proj",
+    "down_proj",
+    "o_proj",
+    "k_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_cell_type/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:4f64740e3d2935e0a5251136c1a9c857163b48a7e5e14fb0809270b683979391
+size 704719768

cat_cell_type/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_cell_type/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_cell_type/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_cell_type/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404

cat_disease/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "down_proj",
+    "v_proj",
+    "gate_proj",
+    "k_proj",
+    "o_proj",
+    "up_proj",
+    "q_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_disease/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c1c7455cf9058b0718147216be30b22f3db13c30e992ca8d7d55eef34dcaedb6
+size 704719768

cat_disease/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_disease/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_disease/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_disease/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404

cat_ethnicity/adapter_config.json

@@ -0,0 +1,42 @@
+{
+  "alpha_pattern": {},
+  "auto_mapping": null,
+  "base_model_name_or_path": "mistralai/Mistral-7B-Instruct-v0.3",
+  "bias": "none",
+  "corda_config": null,
+  "eva_config": null,
+  "exclude_modules": null,
+  "fan_in_fan_out": false,
+  "inference_mode": true,
+  "init_lora_weights": true,
+  "layer_replication": null,
+  "layers_pattern": null,
+  "layers_to_transform": null,
+  "loftq_config": {},
+  "lora_alpha": 32,
+  "lora_bias": false,
+  "lora_dropout": 0.2,
+  "megatron_config": null,
+  "megatron_core": "megatron.core",
+  "modules_to_save": null,
+  "peft_type": "LORA",
+  "qalora_group_size": 16,
+  "r": 16,
+  "rank_pattern": {},
+  "revision": null,
+  "target_modules": [
+    "k_proj",
+    "gate_proj",
+    "down_proj",
+    "up_proj",
+    "o_proj",
+    "q_proj",
+    "v_proj"
+  ],
+  "target_parameters": null,
+  "task_type": "CAUSAL_LM",
+  "trainable_token_indices": null,
+  "use_dora": false,
+  "use_qalora": false,
+  "use_rslora": false
+}

cat_ethnicity/adapter_model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:38dafb04d98bf15f60fd39de75e98a2ef7be73162377458de479c954130a3560
+size 704719768

cat_ethnicity/added_tokens.json

@@ -0,0 +1,3 @@
+{
+  "<pad>": 32768
+}

cat_ethnicity/special_tokens_map.json

@@ -0,0 +1,24 @@
+{
+  "bos_token": {
+    "content": "<s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "eos_token": {
+    "content": "</s>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": "<pad>",
+  "unk_token": {
+    "content": "<unk>",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

cat_ethnicity/tokenizer.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:c9cb3acc357f73729de90a131f83ea8836e45367f6e079df59be48c78469a84f
+size 3672149

cat_ethnicity/tokenizer.model

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:37f00374dea48658ee8f5d0f21895b9bc55cb0103939607c8185bfd1c6ca1f89
+size 587404