ingest BacDive "sample type" data

[realmarcin]

This is somewhat complex in that there is a wide variety of terms with different specificities. Some look like titles of a study and will fail NER. Our first pass here is NER against ENVO and the bacdive CAT environment hierarchy.

    "Isolation, sampling and environmental information": {
        "isolation": {
            "@ref": 21959,
            "sample type": "mangrove soil",

These are the most frequent terms:

3040 soil
2724 soil with plant residues
1390 Soil
1261 Human blood
562 Human
519 Human feces
342 Human urine
322 marine sediment
318 seawater
232 Industry
192 From soil
188 spacecraft-associated clean room class ISO 8, Herschel Space Observatory
187 Human sputum
181 sediment
175 leaf of Arabidopsis thaliana, wild-type genotype
166 Seawater
165 human faeces
163 forest soil
155 Human wound
152 roots of Arabidopsis thaliana ecotype Shakdara (Sha)
121 Environment,industry
115 soil with lime pebbles and plant residues
114 hot spring
112 soil with plant residues and lime pebbles
112 Human cerebrospinal fluid
111 Water
109 garden soil
105 soil sample
104 activated sludge
103 Human sputum,cystic fibrosis
101 faeces of rabbit