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;
  78609ad7-6cf9-49c6-924b-3812c655ab51["Output\nocc_out"];
  16 --> 78609ad7-6cf9-49c6-924b-3812c655ab51;
  style 78609ad7-6cf9-49c6-924b-3812c655ab51 stroke:#2c3143,stroke-width:4px;
  17["GeoNearestNeighbor"];
  2 -->|output| 17;
  16 -->|output_dataset| 17;
  e09bda70-bd38-4866-b924-0f7db38f4ae9["Output\nocc_env_out"];
  17 --> e09bda70-bd38-4866-b924-0f7db38f4ae9;
  style e09bda70-bd38-4866-b924-0f7db38f4ae9 stroke:#2c3143,stroke-width:4px;
  2e26b37a-8303-4503-91eb-49a608bef28e["Output\ninfo_out"];
  17 --> 2e26b37a-8303-4503-91eb-49a608bef28e;
  style 2e26b37a-8303-4503-91eb-49a608bef28e stroke:#2c3143,stroke-width:4px;
  18["BRT tool prediction"];
  2 -->|output| 18;
  17 -->|occ_env_out| 18;
  d7285b2c-922a-45d0-9c40-33be97e237b3["Output\ncoll_pred"];
  18 --> d7285b2c-922a-45d0-9c40-33be97e237b3;
  style d7285b2c-922a-45d0-9c40-33be97e237b3 stroke:#2c3143,stroke-width:4px;
  013072eb-c88a-4c07-8fe5-221619b7cdb6["Output\ncoll_val"];
  18 --> 013072eb-c88a-4c07-8fe5-221619b7cdb6;
  style 013072eb-c88a-4c07-8fe5-221619b7cdb6 stroke:#2c3143,stroke-width:4px;
  32433fbb-1092-4489-8dd0-204130a3c6b4["Output\ncoll_distri"];
  18 --> 32433fbb-1092-4489-8dd0-204130a3c6b4;
  style 32433fbb-1092-4489-8dd0-204130a3c6b4 stroke:#2c3143,stroke-width:4px;
  616a3776-e7ff-4b59-a97a-394865a53244["Output\ncoll_plots"];
  18 --> 616a3776-e7ff-4b59-a97a-394865a53244;
  style 616a3776-e7ff-4b59-a97a-394865a53244 stroke:#2c3143,stroke-width:4px;
  19["TaxaSeeker"];
  2 -->|output| 19;
  17 -->|occ_env_out| 19;
  18 -->|outputpred| 19;
  f3c90979-0b74-446e-97d8-9c8bb3451b10["Output\nsummary"];
  19 --> f3c90979-0b74-446e-97d8-9c8bb3451b10;
  style f3c90979-0b74-446e-97d8-9c8bb3451b10 stroke:#2c3143,stroke-width:4px;
  98258323-7885-4f67-99e8-1b5236171f6f["Output\ntaxa"];
  19 --> 98258323-7885-4f67-99e8-1b5236171f6f;
  style 98258323-7885-4f67-99e8-1b5236171f6f stroke:#2c3143,stroke-width:4px;
  8bee5bae-7b7b-4326-bb85-686e974dc455["Output\ntaxa_clean"];
  19 --> 8bee5bae-7b7b-4326-bb85-686e974dc455;
  style 8bee5bae-7b7b-4326-bb85-686e974dc455 stroke:#2c3143,stroke-width:4px;
  20["ClusterEstimate"];
  2 -->|output| 20;
  18 -->|outputpred| 20;
  19 -->|output2| 20;
  aba6eeb6-3bd9-4f8a-bc99-9a7eb04d1a78["Output\nSIH_index"];
  20 --> aba6eeb6-3bd9-4f8a-bc99-9a7eb04d1a78;
  style aba6eeb6-3bd9-4f8a-bc99-9a7eb04d1a78 stroke:#2c3143,stroke-width:4px;
  830dd017-e554-41f8-87a0-4cb6b0d5e881["Output\ndata_to_clus"];
  20 --> 830dd017-e554-41f8-87a0-4cb6b0d5e881;
  style 830dd017-e554-41f8-87a0-4cb6b0d5e881 stroke:#2c3143,stroke-width:4px;
  7a6c9556-be86-428b-b267-c64f77b837fc["Output\ndatabio_table"];
  20 --> 7a6c9556-be86-428b-b267-c64f77b837fc;
  style 7a6c9556-be86-428b-b267-c64f77b837fc stroke:#2c3143,stroke-width:4px;
  21["ClaraClust"];
  2 -->|output| 21;
  20 -->|output3| 21;
  20 -->|output2| 21;
  62762881-69af-4a8c-bbfb-06261fa7366a["Output\nSIH_plot"];
  21 --> 62762881-69af-4a8c-bbfb-06261fa7366a;
  style 62762881-69af-4a8c-bbfb-06261fa7366a stroke:#2c3143,stroke-width:4px;
  ed47a0a4-cfae-4236-bee6-947d89a9b4c1["Output\ncluster_points"];
  21 --> ed47a0a4-cfae-4236-bee6-947d89a9b4c1;
  style ed47a0a4-cfae-4236-bee6-947d89a9b4c1 stroke:#2c3143,stroke-width:4px;
  a57f6eea-1f9f-4436-958d-82fb8a831bdd["Output\ncluster_info"];
  21 --> a57f6eea-1f9f-4436-958d-82fb8a831bdd;
  style a57f6eea-1f9f-4436-958d-82fb8a831bdd stroke:#2c3143,stroke-width:4px;
  22["EcoMap"];
  21 -->|output2| 22;
  9c03a9b9-ebef-4187-9772-548243038c92["Output\neco_map"];
  22 --> 9c03a9b9-ebef-4187-9772-548243038c92;
  style 9c03a9b9-ebef-4187-9772-548243038c92 stroke:#2c3143,stroke-width:4px;