Skip to content

Latest commit

 

History

History
43 lines (32 loc) · 2.52 KB

README.md

File metadata and controls

43 lines (32 loc) · 2.52 KB

bacdive-classifier

  • This analyses the isolates table from the BacDive and return json for the rest api. I used extensive RUST functional programming and this prepares direct imports of the json into the javascript.
  • please see the last commit message and if it says compiled binary then it is completed or else still in development version.
cargo build 

➜  bacdive git:(main) ✗ ./target/debug/bacdive
 bacdive-analyzer and prepare json

Usage: bacdive <COMMAND>

Commands:
 id
 species       please provide the species that need to be searched
 strain        please provide the category2 that you want to look,
 id-list       this will list all the available unique ids present in the bacdive
 species-list  this will list all the unique species present in the bacdive
 strainlist    this will list all the available countries in the bacdive
 help          Print this message or the help of the given subcommand(s)

Options:
 -h, --help     Print help
 -V, --version  Print version
  • to get the subcommand
➜  bacdive git:(main) ✗ ./target/debug/bacdive id ./sample-file/bacdive-2025-01-17.csv 159652
The ids are: [BacdiveSpeciesJson { id: "159652", species: "Abditibacterium utsteinense", strain: "DSM 105287", information: " LMG 29911,Top surface sample consisting of weathered granite parent material, elevation 1382 m,Antarctica,Australia and Oceania,Environmental,Terrestrial,Geologic" }, BacdiveSpeciesJson { id: "159652", species: "same species", strain: "same strain", information: ",,,,,Climate,Cold,Alpine" }]

➜  bacdive git:(main) ✗ ./target/debug/bacdive species ./sample-file/bacdive-2025-01-17.csv Actinocatenispora-thailandica
The species and the associated information are: [BacdiveSpeciesJson { id: "7795", species: "Actinocatenispora thailandica", strain: "DSM 44816", information: " JCM 12343, PCU 235, BCRC 16831, CGMCC 4.5560, CIP 109347, NBRC 105041, NCIMB 14320,Environment, Soil, peat swamp forrestPeat swamp forest soilsoil,Thailand,Asia,Environmental,Terrestrial,Soil" }, BacdiveSpeciesJson { id: "161217", species: "Actinocatenispora thailandica", strain: "JCM 12344", information: " PCU 236,Peat swamp forest soil,Thailand,Asia,,," }]

➜  bacdive git:(main) ✗ ./target/debug/bacdive strain ./sample-file/bacdive-2025-01-17.csv DSM17304
The strain specific information are as follows:[BacdiveSpeciesJson { id: "268", species: "Aeromonas tecta", strain: "DSM 17304", information: "tap water,Switzerland,Europe,Engineered,Built environment," }]

Gaurav Sablok