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;
  18fd2e0b-07a0-4960-b283-33cd5ae6429c["Output\nocc_out"];
  16 --> 18fd2e0b-07a0-4960-b283-33cd5ae6429c;
  style 18fd2e0b-07a0-4960-b283-33cd5ae6429c stroke:#2c3143,stroke-width:4px;
  17["GeoNearestNeighbor"];
  2 -->|output| 17;
  16 -->|output_dataset| 17;
  8ff8de98-783f-4dc9-979c-3a9050e3eb67["Output\nocc_env_out"];
  17 --> 8ff8de98-783f-4dc9-979c-3a9050e3eb67;
  style 8ff8de98-783f-4dc9-979c-3a9050e3eb67 stroke:#2c3143,stroke-width:4px;
  118be534-5a36-4c61-932d-0e7108be1711["Output\ninfo_out"];
  17 --> 118be534-5a36-4c61-932d-0e7108be1711;
  style 118be534-5a36-4c61-932d-0e7108be1711 stroke:#2c3143,stroke-width:4px;
  18["BRT tool prediction"];
  2 -->|output| 18;
  17 -->|occ_env_out| 18;
  f65e9537-a709-41e2-bcbf-0746172abcb5["Output\ncoll_pred"];
  18 --> f65e9537-a709-41e2-bcbf-0746172abcb5;
  style f65e9537-a709-41e2-bcbf-0746172abcb5 stroke:#2c3143,stroke-width:4px;
  4bc89712-e65c-4ded-b887-b2cd9ab08a0d["Output\ncoll_val"];
  18 --> 4bc89712-e65c-4ded-b887-b2cd9ab08a0d;
  style 4bc89712-e65c-4ded-b887-b2cd9ab08a0d stroke:#2c3143,stroke-width:4px;
  fc1e2432-7918-429a-a345-3354eacedd83["Output\ncoll_distri"];
  18 --> fc1e2432-7918-429a-a345-3354eacedd83;
  style fc1e2432-7918-429a-a345-3354eacedd83 stroke:#2c3143,stroke-width:4px;
  d5aa649a-4dfc-4043-b168-185b96d5a9a7["Output\ncoll_plots"];
  18 --> d5aa649a-4dfc-4043-b168-185b96d5a9a7;
  style d5aa649a-4dfc-4043-b168-185b96d5a9a7 stroke:#2c3143,stroke-width:4px;
  19["TaxaSeeker"];
  2 -->|output| 19;
  17 -->|occ_env_out| 19;
  18 -->|outputpred| 19;
  8f541437-838a-49d3-9ab1-63aa6fe8b19f["Output\nsummary"];
  19 --> 8f541437-838a-49d3-9ab1-63aa6fe8b19f;
  style 8f541437-838a-49d3-9ab1-63aa6fe8b19f stroke:#2c3143,stroke-width:4px;
  9abd0def-c4b0-4e3a-b4a5-aaf97a68ac53["Output\ntaxa"];
  19 --> 9abd0def-c4b0-4e3a-b4a5-aaf97a68ac53;
  style 9abd0def-c4b0-4e3a-b4a5-aaf97a68ac53 stroke:#2c3143,stroke-width:4px;
  3f18cb66-e8b2-459a-9cfc-c827e073d283["Output\ntaxa_clean"];
  19 --> 3f18cb66-e8b2-459a-9cfc-c827e073d283;
  style 3f18cb66-e8b2-459a-9cfc-c827e073d283 stroke:#2c3143,stroke-width:4px;
  20["ClusterEstimate"];
  2 -->|output| 20;
  18 -->|outputpred| 20;
  19 -->|output2| 20;
  8e492395-00e1-4e9d-911b-ea8c2094fc9b["Output\nSIH_index"];
  20 --> 8e492395-00e1-4e9d-911b-ea8c2094fc9b;
  style 8e492395-00e1-4e9d-911b-ea8c2094fc9b stroke:#2c3143,stroke-width:4px;
  e426a312-813c-4839-81b1-f3c4de81ddc2["Output\ndata_to_clus"];
  20 --> e426a312-813c-4839-81b1-f3c4de81ddc2;
  style e426a312-813c-4839-81b1-f3c4de81ddc2 stroke:#2c3143,stroke-width:4px;
  c7a10800-ae15-414b-a815-8e7fe563e1f0["Output\ndatabio_table"];
  20 --> c7a10800-ae15-414b-a815-8e7fe563e1f0;
  style c7a10800-ae15-414b-a815-8e7fe563e1f0 stroke:#2c3143,stroke-width:4px;
  21["ClaraClust"];
  2 -->|output| 21;
  20 -->|output3| 21;
  20 -->|output2| 21;
  9e97d1bb-f4e9-44e8-b698-e969cb8a86d8["Output\nSIH_plot"];
  21 --> 9e97d1bb-f4e9-44e8-b698-e969cb8a86d8;
  style 9e97d1bb-f4e9-44e8-b698-e969cb8a86d8 stroke:#2c3143,stroke-width:4px;
  d461deac-ab30-42f8-a8fc-0b8185ea0dc9["Output\ncluster_points"];
  21 --> d461deac-ab30-42f8-a8fc-0b8185ea0dc9;
  style d461deac-ab30-42f8-a8fc-0b8185ea0dc9 stroke:#2c3143,stroke-width:4px;
  98f7b293-c01e-4289-a8ed-cedbe8a6b1d9["Output\ncluster_info"];
  21 --> 98f7b293-c01e-4289-a8ed-cedbe8a6b1d9;
  style 98f7b293-c01e-4289-a8ed-cedbe8a6b1d9 stroke:#2c3143,stroke-width:4px;
  22["EcoMap"];
  21 -->|output2| 22;
  bc1b850e-0764-4d27-b1c0-fc66dd83f984["Output\neco_map"];
  22 --> bc1b850e-0764-4d27-b1c0-fc66dd83f984;
  style bc1b850e-0764-4d27-b1c0-fc66dd83f984 stroke:#2c3143,stroke-width:4px;