Overview | Taxonomy and names of pest | Host of pest -- as text or as table | Categorization table | Distribution of pest
Package: pestr 0.8.4
pestr: Interface to Download Data on Pests and Hosts from 'EPPO'
Set of tools to automatize extraction of data on pests from 'EPPO Data Services' and 'EPPO Global Database' and to put them into tables with human readable format. Those function use 'EPPO database API', thus you first need to register on <https://data.eppo.int> (free of charge). Additional helpers allow to download, check and connect to 'SQLite EPPO database'.
Authors:
pestr_0.8.4.tar.gz
pestr_0.8.4.zip(r-4.7-any)pestr_0.8.4.zip(r-4.6-any)pestr_0.8.4.zip(r-4.5-any)
pestr_0.8.4.tgz(r-4.6-any)pestr_0.8.4.tgz(r-4.5-any)
pestr_0.8.4.tar.gz(r-4.7-any)pestr_0.8.4.tar.gz(r-4.6-any)
pestr_0.8.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
pestr/json (API)
| # Install 'pestr' in R: |
| install.packages('pestr', repos = c('https://mczyzj.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mczyzj/pestr/issues
Last updated from:89e592a67c. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 136 | ||
| source / vignettes | OK | 212 | ||
| linux-release | OK | 126 | ||
| macos-release | OK | 154 | ||
| macos-oldrel | OK | 189 | ||
| windows-devel | OK | 76 | ||
| windows-release | OK | 82 | ||
| windows-oldrel | OK | 86 | ||
| wasm-release | OK | 100 |
Exports:check_eppo_tokencreate_eppo_tokeneppo_citationeppo_database_checkeppo_database_connecteppo_database_downloadeppo_names_tableseppo_table_fulleppo_tabletools_cateppo_tabletools_distrieppo_tabletools_hostseppo_tabletools_nameseppo_tabletools_pestseppo_tabletools_taxo
Dependencies:askpassbitbit64blobcachemclicliprcpp11crayoncurlDBIdplyrfastmapgenericsgluehmshttrjsonlitelifecyclemagrittrmemoisemimeopensslpillarpkgconfigprettyunitsprogresspurrrR6readrrlangRSQLitestringistringrsystibbletidyrtidyselecttzdbutf8vctrsvroomwithr
Create tables for EPPO Pest Risk Assessment
Last update: 2021-09-10
Started: 2021-09-10
Example workflow of checking taxons affecting Abies alba
Overview | Step I -- get valid eppocode for Abies alba | Step II -- query EPPO Data Services | With eppo_names_tables output as an argument: | Querying with valid eppocode (or eppocodes) | Step III -- number of pests type | Step IV -- Number of taxons
Last update: 2021-01-23
Started: 2020-04-13
pestr Workflow
Overview | Example workflow | Setting up token and connecting to SQLite database | Extracting tables with scientific, common and synonym names | eppo_tabletools_ functions to extract categorization, hosts, taxonomy, distribution and pests | Categorization of pests | Hosts of pests | Taxonomy of Pests and hosts | Pests of hosts | Distribution of pests | Whole condensed table in one shot (currently does not include eppo_tabletools_pests):
Last update: 2021-01-23
Started: 2018-10-02
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| EPPO Data Services token variable | check_eppo_token |
| EPPO Data Services token variable | create_eppo_token |
| Citation helper tools | eppo_citation |
| EPPO Data Services Database connection tools | eppo_database eppo_database_check eppo_database_connect eppo_database_download |
| EPPO Data Services SQLite Database search tools | eppo_names_tables |
| EPPO Data Services information table | eppo_table_full |
| EPPO table manipulation tools | eppo_tabletools eppo_tabletools_cat eppo_tabletools_distri eppo_tabletools_hosts eppo_tabletools_names eppo_tabletools_pests eppo_tabletools_taxo |