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re-knit readme
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cboettig committed Mar 2, 2019
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2 changes: 1 addition & 1 deletion README.Rmd
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# rfishbase <img src="man/figures/logo.svg" align="right" alt="" width="120" />

[![Build Status](https://travis-ci.org/ropensci/rfishbase.svg)](https://travis-ci.org/ropensci/rfishbase)
[![AppVeyor build status](https://ci.appveyor.com/api/projects/status/github/ropensci/rfishbase?branch=master&svg=true)](https://ci.appveyor.com/project/ropensci/rfishbase)
[![Build status](https://ci.appveyor.com/api/projects/status/decpqq5s57b7b0t6/branch/master?svg=true)](https://ci.appveyor.com/project/cboettig/rfishbase/branch/master)
[![cran checks](https://cranchecks.info/badges/worst/rfishbase)](https://cranchecks.info/pkgs/rfishbase)
[![Coverage status](https://codecov.io/gh/ropensci/rfishbase/branch/master/graph/badge.svg)](https://codecov.io/github/ropensci/rfishbase?branch=master)
[![Onboarding](https://badges.ropensci.org/137_status.svg)](https://github.com/ropensci/onboarding/issues/137)
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18 changes: 9 additions & 9 deletions README.md
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[![Build
Status](https://travis-ci.org/ropensci/rfishbase.svg)](https://travis-ci.org/ropensci/rfishbase)
[![AppVeyor build
status](https://ci.appveyor.com/api/projects/status/github/ropensci/rfishbase?branch=master&svg=true)](https://ci.appveyor.com/project/ropensci/rfishbase)
[![Build
status](https://ci.appveyor.com/api/projects/status/decpqq5s57b7b0t6/branch/master?svg=true)](https://ci.appveyor.com/project/cboettig/rfishbase/branch/master)
[![cran
checks](https://cranchecks.info/badges/worst/rfishbase)](https://cranchecks.info/pkgs/rfishbase)
[![Coverage
Status](https://coveralls.io/repos/ropensci/rfishbase/badge.svg)](https://coveralls.io/r/ropensci/rfishbase?branch=master)
status](https://codecov.io/gh/ropensci/rfishbase/branch/master/graph/badge.svg)](https://codecov.io/github/ropensci/rfishbase?branch=master)
[![Onboarding](https://badges.ropensci.org/137_status.svg)](https://github.com/ropensci/onboarding/issues/137)
[![CRAN
status](https://www.r-pkg.org/badges/version/rfishbase)](https://cran.r-project.org/package=rfishbase)
Expand Down Expand Up @@ -158,7 +158,7 @@ trout
8 Plectropomus areolatus Apricot trout English 6082
9 Salmo trutta Aral Sea Trout English 238
10 Salmo trutta Aral trout English 238
# ... with 269 more rows
# with 269 more rows

Note that there is no need to validate names coming from `common_to_sci`
or `species_list`, as these will always return valid names.
Expand Down Expand Up @@ -194,7 +194,7 @@ species(trout$Species)
8 6082 Plectr… 5222 (R<fc… Squar… Plare_u4.jpg
9 238 Salmo … 4779 Linna… Sea t… Satru_u2.jpg
10 238 Salmo … 4779 Linna… Sea t… Satru_u2.jpg
# ... with 269 more rows, and 92 more variables: PicPreferredNameM <chr>,
# with 269 more rows, and 92 more variables: PicPreferredNameM <chr>,
# PicPreferredNameF <chr>, PicPreferredNameJ <chr>, FamCode <dbl>,
# Subfamily <chr>, GenCode <dbl>, SubGenCode <dbl>, BodyShapeI <chr>,
# Source <chr>, AuthorRef <lgl>, Remark <chr>, TaxIssue <dbl>,
Expand Down Expand Up @@ -252,7 +252,7 @@ dat
8 Plectropomus areolatus very high 57.0
9 Salmo trutta very high 60.0
10 Salmo trutta very high 60.0
# ... with 269 more rows
# with 269 more rows

Alternatively, just subset the table using the standard column selection
in base R (`[[`) or `dplyr::select`.
Expand Down Expand Up @@ -306,7 +306,7 @@ stocks(trout$Species, fields=c("Species", "Resilience", "StockDefs"))
8 Salmo trutta Low "<i>Salmo trutta lacustris</i>\t: Europe:…
9 Salmo trutta <NA> "<i>Salmo trutta oxianus</i>\t: Asia: Am…
10 Salmo trutta <NA> <i>Salmo trutta aralensis</i>: Asia: Ara…
# ... with 370 more rows
# with 370 more rows

## Version stability

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8 64 Victaphan… Victa… <NA> Rhytid… Pulmo… Gast… Mollu… Animal…
9 65 Anoglypta… Anogl… <NA> Caryod… Pulmo… Gast… Mollu… Animal…
10 66 Brazieres… Brazi… <NA> Caryod… Pulmo… Gast… Mollu… Animal…
# ... with 19,463 more rows
# with 19,463 more rows

All other tables can also take an argument to `server`:

Expand All @@ -380,7 +380,7 @@ species(server="sealifebase")
8 8 Phoron… 1 Gilch… NA <NA> <NA>
9 9 Phoron… 1 Pixel… NA <NA> <NA>
10 10 Phoron… 1 Hilto… NA Calif… <NA>
# ... with 119,064 more rows, and 97 more variables:
# with 119,064 more rows, and 97 more variables:
# PicPreferredNameM <chr>, PicPreferredNameF <chr>,
# PicPreferredNameJ <chr>, FamCode <dbl>, Subfamily <chr>, Source <chr>,
# Remark <chr>, TaxIssue <dbl>, Fresh <dbl>, Brack <dbl>,
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