Author: Xiang Que

# OpenMindat

#### Xiang Que

Mindat.org is the world’s largest open database of minerals, rocks, meteorites and the localities they come from.Mindat.org is run by the not-for-profit.

Learn Learn more about rocks and minerals, their origins and their uses: Enter our learning center.

OpenMindat is a package for retrieving and processing data from mindat.org database through its open data API.

Mindat and University of Idaho collaborate on OpenMindat Project.

### Get started

#### Load libraries

The OpenMindat R package require the following libraries:

    library(httr)
    library(jsonlite)

    ## Warning: package 'jsonlite' was built under R version 4.3.3

    library(OpenMindat)
    library("stringr")
    library(readxl)

#### Initializing API Call

Users can set the `page_size` from 0 to 1500 (default is 800). The Mindat API returns the largest record size per request.

    test_base_token = "9ce67655d74bcd981e937be80dcea9cb"
    #mindat_connection(test_base_token,page_size = 1500)

#### 1. Qurey Geomaterials

##### by chemical elements:

1. query geomaterials records that contain any elements in a given list:

    #geomaterials_contain_any_elems (c('Fe','S'),fields ="id,name,mindat_formula,elements,sigelements")

2. query geomaterials records that contain all of the elements in a given list:

    #geomaterials_contain_all_elems (c('Fe','S'),fields ="id,name,mindat_formula,elements,sigelements")

3. query geomaterials records that only contain the elements in a given list:

    #geomaterials_contain_only_elems (c('Fe','S'),fields ="id,name,mindat_formula,elements,sigelements")

4. query geomaterials records that not contain any of the elements in a given list:

    #geomaterials_not_contain_elems (c('Fe','S','O'),fields ="id,name,mindat_formula,elements,sigelements")

5. query geomaterials records that contain all the elements in the first given list,but not contain the elements in the second given list:

    #geomaterials_contain_all_but_not_elems(c('Fe','S'), c('O'),fields ="id,name,mindat_formula,elements,sigelements")

6. query geomaterials records that contain any of the elements in the first given list,but not the elements in the second given list:

    #geomaterials_contain_any_but_not_elems(c('Fe','S'), c('O'),fields ="id,name,mindat_formula,elements,sigelements")

#### by physical properties:

7. query geomaterials records that have hardness within a given range:

    #geomaterials_hardness_range(3,3.5,fields="id,name,hmin,hmax,hardtype,commenthard")

8. query geomaterials records that have hardness higher than a given value:

    #geomaterials_hardness_gt(9,fields="id,name,hmin,hmax,hardtype,commenthard")

9. query geomaterials records that have hardness lower than a given value:

    #geomaterials_hardness_lt(9,fields="id,name,hmin,hmax,hardtype,commenthard")

10. query geomaterials records that have density within a given range:

    #geomaterials_dens_range(3,3.2,fields="id,name,dmeas,dmeas2,dmeaserror,dcalcerror")

11. query geomaterials records that have birefringence within a given range:

    #geomaterials_bi_range(0.6,0.7,fields = "id,name,rimin,rimax,opticalbirefringence,opticalbireflectance")

12. query geomaterials records that have optical2v within a given range:

    #geomaterials_optical2v_range(9,10,fields = "id,name,optical2vmeasured,optical2vmeasured2,optical2vcalc,optical2vcalc2,optical2vcalcerror,optical2vmeasurederror")

13. query geomaterials records that have a given crystal system

    #geomaterials_crystal_system(c("Icosahedral"),fields = "id,name,elements,csystem,cleavagetype,commentcrystal")

14. query geomaterials records that have a given fracturetype

    #geomaterials_fracturetype(c("Step-Like"),fields = "id,name,fracturetype,elements,csystem,crystal_system,cleavagetype")

15. query geomaterials records that have a list of given colours

    #geomaterials_colour(c("bright blue"),fields = "id,name,elements,csystem,colour,opticalcolour,commentcolor")

16. query the geomaterials records that match an given steak.

    #geomaterials_streak(c("orange"),fields = "id,name,elements,csystem,colour,opticalcolour,commentcolor,streak")

17. query the geomaterials records that match an given diapheny.

    #geomaterials_diapheny("Transparent",fields = "id,name,elements,csystem,colour,diapheny")

18. query the geomaterials records that match an given lustretype.

    #geomaterials_lustretype(c("Sub-Adamantine"),fields = "id,name,elements,csystem,cleavage,cleavagetype,rimin,rimax,lustre,lustretype")

(19)query the geomaterials records by names, fields:

    #geomaterials_meteoritical_code_exists("true",fields ="id,name,meteoritical_code,meteoritical_code_exists")
    #geomaterials_search_name("Quartz",fields = "id,name")
    #geomaterials_name("qu_rtz",fields = "id,name")
    #geomaterials_name("qu*",fields = "id,name")

#### 2. Qurey Localities

    #localities_list_country("Norway")
    #localities_list_description("volcano")
    #localities_list_elems_inc(c("Dy"))
    #localities_list_elems_inc_exc(c("Dy"),c("Li"))
    #locality_age_list()

#### 3. Qurey IMA Minerals

    #minerals_ima_list()
    #minerals_ima_list_ima(0)

#### 4. Save the retrieved R dataframe as a specified format file.

    #saveMindatDataAs(df,"df_geomaterials.ttl")
    #saveMindatDataAs(df,"df_geomaterials.jsonld")