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;
  11339428-2e36-4f56-9353-6b9fe26b46f2["Output\nocc_out"];
  16 --> 11339428-2e36-4f56-9353-6b9fe26b46f2;
  style 11339428-2e36-4f56-9353-6b9fe26b46f2 stroke:#2c3143,stroke-width:4px;
  17["GeoNearestNeighbor"];
  2 -->|output| 17;
  16 -->|output_dataset| 17;
  22e6ce83-056d-414b-8b8f-314dbfd4929d["Output\nocc_env_out"];
  17 --> 22e6ce83-056d-414b-8b8f-314dbfd4929d;
  style 22e6ce83-056d-414b-8b8f-314dbfd4929d stroke:#2c3143,stroke-width:4px;
  693f9fb2-9dbe-4cc7-8970-26275ca7d459["Output\ninfo_out"];
  17 --> 693f9fb2-9dbe-4cc7-8970-26275ca7d459;
  style 693f9fb2-9dbe-4cc7-8970-26275ca7d459 stroke:#2c3143,stroke-width:4px;
  18["BRT tool prediction"];
  2 -->|output| 18;
  17 -->|occ_env_out| 18;
  4c875b09-dbab-45d9-9e37-8ef51a102710["Output\ncoll_pred"];
  18 --> 4c875b09-dbab-45d9-9e37-8ef51a102710;
  style 4c875b09-dbab-45d9-9e37-8ef51a102710 stroke:#2c3143,stroke-width:4px;
  e828eec0-fb98-47d0-8d63-1ecf80959f83["Output\ncoll_val"];
  18 --> e828eec0-fb98-47d0-8d63-1ecf80959f83;
  style e828eec0-fb98-47d0-8d63-1ecf80959f83 stroke:#2c3143,stroke-width:4px;
  35300263-2dcc-4d4d-b3b7-b655d2cd7c9e["Output\ncoll_distri"];
  18 --> 35300263-2dcc-4d4d-b3b7-b655d2cd7c9e;
  style 35300263-2dcc-4d4d-b3b7-b655d2cd7c9e stroke:#2c3143,stroke-width:4px;
  9837eaa5-5e49-4f28-9e4b-bb14e81c7cab["Output\ncoll_plots"];
  18 --> 9837eaa5-5e49-4f28-9e4b-bb14e81c7cab;
  style 9837eaa5-5e49-4f28-9e4b-bb14e81c7cab stroke:#2c3143,stroke-width:4px;
  19["TaxaSeeker"];
  2 -->|output| 19;
  17 -->|occ_env_out| 19;
  18 -->|outputpred| 19;
  b35699fd-9cb9-43c0-aa74-dda5e089ffaa["Output\nsummary"];
  19 --> b35699fd-9cb9-43c0-aa74-dda5e089ffaa;
  style b35699fd-9cb9-43c0-aa74-dda5e089ffaa stroke:#2c3143,stroke-width:4px;
  9ef7208a-1157-4185-946f-0a4f547eee99["Output\ntaxa"];
  19 --> 9ef7208a-1157-4185-946f-0a4f547eee99;
  style 9ef7208a-1157-4185-946f-0a4f547eee99 stroke:#2c3143,stroke-width:4px;
  eebdd8d1-7769-4e8f-81a7-e07a64bc9769["Output\ntaxa_clean"];
  19 --> eebdd8d1-7769-4e8f-81a7-e07a64bc9769;
  style eebdd8d1-7769-4e8f-81a7-e07a64bc9769 stroke:#2c3143,stroke-width:4px;
  20["ClusterEstimate"];
  2 -->|output| 20;
  18 -->|outputpred| 20;
  19 -->|output2| 20;
  6b7677ef-c77a-47a9-8a2f-794c2ffab329["Output\nSIH_index"];
  20 --> 6b7677ef-c77a-47a9-8a2f-794c2ffab329;
  style 6b7677ef-c77a-47a9-8a2f-794c2ffab329 stroke:#2c3143,stroke-width:4px;
  9cffdbe2-5a2e-4e76-b936-8665b4824e41["Output\ndata_to_clus"];
  20 --> 9cffdbe2-5a2e-4e76-b936-8665b4824e41;
  style 9cffdbe2-5a2e-4e76-b936-8665b4824e41 stroke:#2c3143,stroke-width:4px;
  deed5d9e-57b0-4226-88de-2cd37a73d5a6["Output\ndatabio_table"];
  20 --> deed5d9e-57b0-4226-88de-2cd37a73d5a6;
  style deed5d9e-57b0-4226-88de-2cd37a73d5a6 stroke:#2c3143,stroke-width:4px;
  21["ClaraClust"];
  2 -->|output| 21;
  20 -->|output3| 21;
  20 -->|output2| 21;
  c53ea1fd-92d1-4ae9-b745-e3ca87a64d53["Output\nSIH_plot"];
  21 --> c53ea1fd-92d1-4ae9-b745-e3ca87a64d53;
  style c53ea1fd-92d1-4ae9-b745-e3ca87a64d53 stroke:#2c3143,stroke-width:4px;
  2d472ec4-61fe-4f50-b941-c309c454acbd["Output\ncluster_points"];
  21 --> 2d472ec4-61fe-4f50-b941-c309c454acbd;
  style 2d472ec4-61fe-4f50-b941-c309c454acbd stroke:#2c3143,stroke-width:4px;
  443310c8-f104-4195-80b2-b94ff701c333["Output\ncluster_info"];
  21 --> 443310c8-f104-4195-80b2-b94ff701c333;
  style 443310c8-f104-4195-80b2-b94ff701c333 stroke:#2c3143,stroke-width:4px;
  22["EcoMap"];
  21 -->|output2| 22;
  d4051ec3-de05-48b4-8ae9-9f23922230c0["Output\neco_map"];
  22 --> d4051ec3-de05-48b4-8ae9-9f23922230c0;
  style d4051ec3-de05-48b4-8ae9-9f23922230c0 stroke:#2c3143,stroke-width:4px;