Ecoregionalization workflow

Seguineau Pauline

Last updated Sep 16, 2024

Launch in Tutorial Mode question
License: MIT
Tests: ✅ Results: Not yet automated

flowchart TD
  0["ℹ️ Input Dataset\noccurrence.txt"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["ℹ️ Input Dataset\npivot_wider_jupytool_notebook.ipynb"];
  style 1 stroke:#2c3143,stroke-width:4px;
  2["ℹ️ Input Dataset\nceamarc_env.tsv"];
  style 2 stroke:#2c3143,stroke-width:4px;
  3["Advanced Cut"];
  0 -->|output| 3;
  4["Column Regex Find And Replace"];
  3 -->|output| 4;
  5["Column Regex Find And Replace"];
  4 -->|out_file1| 5;
  6["Column Regex Find And Replace"];
  5 -->|out_file1| 6;
  7["Column Regex Find And Replace"];
  6 -->|out_file1| 7;
  8["Filter Tabular"];
  7 -->|out_file1| 8;
  9["Column Regex Find And Replace"];
  8 -->|output| 9;
  10["Column Regex Find And Replace"];
  9 -->|out_file1| 10;
  11["Column Regex Find And Replace"];
  10 -->|out_file1| 11;
  12["Column Regex Find And Replace"];
  11 -->|out_file1| 12;
  13["Column Regex Find And Replace"];
  12 -->|out_file1| 13;
  14["Merge Columns"];
  13 -->|out_file1| 14;
  15["Advanced Cut"];
  14 -->|out_file1| 15;
  16["Interactive JupyTool and notebook"];
  1 -->|output| 16;
  15 -->|output| 16;
  3f2cff5d-1b59-4d84-a1d7-a0a605b3a1d0["Output\nocc_out"];
  16 --> 3f2cff5d-1b59-4d84-a1d7-a0a605b3a1d0;
  style 3f2cff5d-1b59-4d84-a1d7-a0a605b3a1d0 stroke:#2c3143,stroke-width:4px;
  17["GeoNearestNeighbor"];
  2 -->|output| 17;
  16 -->|output_dataset| 17;
  397ce2ff-f5ee-49a6-a026-0bf9244ce152["Output\nocc_env_out"];
  17 --> 397ce2ff-f5ee-49a6-a026-0bf9244ce152;
  style 397ce2ff-f5ee-49a6-a026-0bf9244ce152 stroke:#2c3143,stroke-width:4px;
  65ec485f-e835-4f52-a2cb-6eb98e072469["Output\ninfo_out"];
  17 --> 65ec485f-e835-4f52-a2cb-6eb98e072469;
  style 65ec485f-e835-4f52-a2cb-6eb98e072469 stroke:#2c3143,stroke-width:4px;
  18["BRT tool prediction"];
  2 -->|output| 18;
  17 -->|occ_env_out| 18;
  a290a1ff-c96b-4fe1-8ef6-d5f0d5721744["Output\ncoll_pred"];
  18 --> a290a1ff-c96b-4fe1-8ef6-d5f0d5721744;
  style a290a1ff-c96b-4fe1-8ef6-d5f0d5721744 stroke:#2c3143,stroke-width:4px;
  5ed106f8-a3f5-493b-a902-6cafe813fc11["Output\ncoll_val"];
  18 --> 5ed106f8-a3f5-493b-a902-6cafe813fc11;
  style 5ed106f8-a3f5-493b-a902-6cafe813fc11 stroke:#2c3143,stroke-width:4px;
  60e02257-6584-4af5-a9c3-5c08328cb73b["Output\ncoll_distri"];
  18 --> 60e02257-6584-4af5-a9c3-5c08328cb73b;
  style 60e02257-6584-4af5-a9c3-5c08328cb73b stroke:#2c3143,stroke-width:4px;
  3549bb96-eb0a-4cba-bb11-ee1115a5ef61["Output\ncoll_plots"];
  18 --> 3549bb96-eb0a-4cba-bb11-ee1115a5ef61;
  style 3549bb96-eb0a-4cba-bb11-ee1115a5ef61 stroke:#2c3143,stroke-width:4px;
  19["TaxaSeeker"];
  2 -->|output| 19;
  17 -->|occ_env_out| 19;
  18 -->|outputpred| 19;
  7c6e6b18-e313-4ffd-a981-77b585d2359e["Output\nsummary"];
  19 --> 7c6e6b18-e313-4ffd-a981-77b585d2359e;
  style 7c6e6b18-e313-4ffd-a981-77b585d2359e stroke:#2c3143,stroke-width:4px;
  2f3b8921-45b9-479f-b8ec-54017f0962fe["Output\ntaxa"];
  19 --> 2f3b8921-45b9-479f-b8ec-54017f0962fe;
  style 2f3b8921-45b9-479f-b8ec-54017f0962fe stroke:#2c3143,stroke-width:4px;
  59f60f47-4e83-4191-894a-f4f56d6d9069["Output\ntaxa_clean"];
  19 --> 59f60f47-4e83-4191-894a-f4f56d6d9069;
  style 59f60f47-4e83-4191-894a-f4f56d6d9069 stroke:#2c3143,stroke-width:4px;
  20["ClusterEstimate"];
  2 -->|output| 20;
  18 -->|outputpred| 20;
  19 -->|output2| 20;
  3a0a9afa-1992-4b4e-975a-0c16ff6cd2d5["Output\nSIH_index"];
  20 --> 3a0a9afa-1992-4b4e-975a-0c16ff6cd2d5;
  style 3a0a9afa-1992-4b4e-975a-0c16ff6cd2d5 stroke:#2c3143,stroke-width:4px;
  6c426707-2747-4940-a055-6af0f6b3272c["Output\ndata_to_clus"];
  20 --> 6c426707-2747-4940-a055-6af0f6b3272c;
  style 6c426707-2747-4940-a055-6af0f6b3272c stroke:#2c3143,stroke-width:4px;
  9c2c88ad-8534-4e7a-885f-980fcbe772a2["Output\ndatabio_table"];
  20 --> 9c2c88ad-8534-4e7a-885f-980fcbe772a2;
  style 9c2c88ad-8534-4e7a-885f-980fcbe772a2 stroke:#2c3143,stroke-width:4px;
  21["ClaraClust"];
  2 -->|output| 21;
  20 -->|output3| 21;
  20 -->|output2| 21;
  ce3d2cb3-71fc-43a4-8e79-1264e6fbeb3f["Output\nSIH_plot"];
  21 --> ce3d2cb3-71fc-43a4-8e79-1264e6fbeb3f;
  style ce3d2cb3-71fc-43a4-8e79-1264e6fbeb3f stroke:#2c3143,stroke-width:4px;
  4b6934e8-e814-4dd1-b983-b6798a55ac26["Output\ncluster_points"];
  21 --> 4b6934e8-e814-4dd1-b983-b6798a55ac26;
  style 4b6934e8-e814-4dd1-b983-b6798a55ac26 stroke:#2c3143,stroke-width:4px;
  2316a407-ef91-4535-95dc-bb36a7d9471d["Output\ncluster_info"];
  21 --> 2316a407-ef91-4535-95dc-bb36a7d9471d;
  style 2316a407-ef91-4535-95dc-bb36a7d9471d stroke:#2c3143,stroke-width:4px;
  22["EcoMap"];
  21 -->|output2| 22;
  6bb971dd-6cd7-4a4a-b2da-9b1f96ad09b5["Output\neco_map"];
  22 --> 6bb971dd-6cd7-4a4a-b2da-9b1f96ad09b5;
  style 6bb971dd-6cd7-4a4a-b2da-9b1f96ad09b5 stroke:#2c3143,stroke-width:4px;