Skip to content

Commit dba1f1a

Browse files
allisonhorstAllison Horstbrunj7
authoredMar 19, 2023
CRAN resubmission updates (#83)
* CRAN resubmission updates * removing vignette builder field since there are no more vignettes * fixing an error in the documentation * fixing an error in the hbr documentation as of #73 * fixing typo in and documentation as of #76 --------- Co-authored-by: Allison Horst <ahorst@ucsb.edu> Co-authored-by: Julien Brun <brun.julien@gmail.com>
1 parent e58db9a commit dba1f1a

21 files changed

+488
-81
lines changed
 

‎DESCRIPTION

+2-3
Original file line numberDiff line numberDiff line change
@@ -1,7 +1,7 @@
11
Package: lterdatasampler
2-
Title: Educational dataset examples from the Long Term Ecological Research program
2+
Title: Educational Dataset Examples from the Long Term Ecological Research Program
33
Version: 0.1.1
4-
Date: 2020-08-01
4+
Date: 2023-03-18
55
Authors@R: c(
66
person(given = "Allison",
77
family = "Horst",
@@ -62,4 +62,3 @@ Suggests:
6262
gt
6363
URL: https://github.com/lter/lterdatasampler
6464
BugReports: https://github.com/lter/lterdatasampler/issues
65-
VignetteBuilder: knitr

‎R/and_vertebrates_doc.R

+2-2
Original file line numberDiff line numberDiff line change
@@ -17,10 +17,10 @@
1717
#' \item{length_1_mm}{a number denoting vertebrate length in millimeters; total or snout-fork length for trout, and snout-vent length for salamanders}
1818
#' \item{length_2_mm}{a number denoting snout-tail length in millimeters (for Coastal giant salamander only)}
1919
#' \item{weight_g}{a number denoting vertebrate mass in grams}
20-
#' \item{clip}{a character denoting the fin clip type for cutthroat trout, ended in 2006 (LV = left ventrical fin; LVRV = left and right ventrical fins; RV = right ventrical fin; NONE = no ventral fin clip)}
20+
#' \item{clip}{a character denoting the fin clip type for cutthroat trout, ended in 2006 (LV = left ventral fin; LVRV = left and right ventral fins; RV = right ventral fin; NONE = no ventral fin clip)}
2121
#' \item{sampledate}{a date denoting the date of observation}
2222
#' \item{notes}{a character denoting additional comments}
2323
#' }
2424
#' @source {Gregory, S.V. and I. Arismendi. 2020. Aquatic Vertebrate Population Study in Mack Creek, Andrews Experimental Forest, 1987 to present ver 14. Environmental Data Initiative.}
25-
#' \url{https://doi.org/10.6073/pasta/7c78d662e847cdbe33584add8f809165}
25+
#' \doi{10.6073/pasta/7c78d662e847cdbe33584add8f809165}
2626
"and_vertebrates"

‎R/arc_weather_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -10,7 +10,7 @@
1010
#' \item{daily_precip}{a number denoting total daily precipitation in millimeters}
1111
#' \item{mean_windspeed}{a number denoting daily mean windspeed in meters per second}
1212
#' }
13-
#' @source {Shaver, G. 2019. A multi-year DAILY weather file for the Toolik Field Station at Toolik Lake, AK starting 1988 to present. ver 4. Environmental Data Initiative.} \url{https://doi.org/10.6073/pasta/ce0f300cdf87ec002909012abefd9c5c}
13+
#' @source {Shaver, G. 2019. A multi-year DAILY weather file for the Toolik Field Station at Toolik Lake, AK starting 1988 to present. ver 4. Environmental Data Initiative.} \doi{10.6073/pasta/ce0f300cdf87ec002909012abefd9c5c}
1414
#' @source {Arctic LTER website:} \url{https://arc-lter.ecosystems.mbl.edu/}
1515
"arc_weather"
1616

‎R/hbr_maples_doc.R

+2-2
Original file line numberDiff line numberDiff line change
@@ -6,7 +6,7 @@
66
#' \describe{
77
#' \item{year}{a number denoting the year that the sample was taken}
88
#' \item{watershed}{a factor denoting the watershed where the sample was collected; W1 = calcium-treated, Reference = reference}
9-
#' \item{elevation}{a factor describing the sample staion where the fecal sample was collected}
9+
#' \item{elevation}{a factor describing the Elevation of transect; Low = low elevation, Mid = mid elevation}
1010
#' \item{transect}{a factor denoting the transect number within the watershed}
1111
#' \item{sample}{a factor denoting the sample number within transect. There are twenty samples in each transect}
1212
#' \item{stem_length}{a number denoting the height of the seedling in millimeters}
@@ -17,6 +17,6 @@
1717
#' \item{corrected_leaf_area}{a number denoting the area of both leaves in addition to the area removed for chlorophyll measurements in square centimeters}
1818
#' }
1919
#' @source {Juice, S. and T. Fahey. 2019. Health and mycorrhizal colonization response of sugar maple (Acer saccharum) seedlings to calcium addition in Watershed 1 at the Hubbard Brook Experimental Forest ver 3. Environmental Data Initiative.}
20-
#' \url{https://doi.org/10.6073/pasta/0ade53ede9a916a36962799b2407097e}
20+
#' \doi{10.6073/pasta/0ade53ede9a916a36962799b2407097e}
2121

2222
"hbr_maples"

‎R/knz_bison_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -14,6 +14,6 @@
1414
#' \item{animal_yob}{a number denoting the year animal was born}
1515
#' }
1616
#' @source {EBlair, J. 2021. CBH01 Konza Prairie bison herd information ver 12. Environmental Data Initiative. https://doi.org/10.6073/pasta/9c641b35695abc5889edd64c3950517f (Accessed 2021-05-10).}
17-
#' \url{https://portal.edirepository.org/nis/mapbrowse?packageid=knb-lter-knz.78.12}
17+
#' \doi{10.6073/pasta/9c641b35695abc5889edd64c3950517f}
1818

1919
"knz_bison"

‎R/luq_streamchem_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -24,5 +24,5 @@
2424
#' \item{TSS}{a number denoting the Total Suspended Sediments in mg/L}
2525
#' }
2626
#' @source {McDowell, W. 2021. Chemistry of stream water from the Luquillo Mountains ver 4923056. Environmental Data Initiative.}
27-
#' \url{https://doi.org/10.6073/pasta/0a09f5aa2e6f11451553c92b102279a6}
27+
#' \doi{10.6073/pasta/0a09f5aa2e6f11451553c92b102279a6}
2828
"luq_streamchem"

‎R/ntl_airtemp_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@
1010
#' }
1111

1212
#' @source {Anderson, L. and D. Robertson. 2020. Madison Wisconsin Daily Meteorological Data 1869 - current ver 32. Environmental Data Initiative.}
13-
#' \url{https://doi.org/10.6073/pasta/e3ff85971d817e9898bb8a83fb4c3a8b}
13+
#' \doi{10.6073/pasta/e3ff85971d817e9898bb8a83fb4c3a8b}
1414
"ntl_airtemp"

‎R/ntl_icecover_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -12,7 +12,7 @@
1212
#' \item{year}{a number denoting the year of observation}
1313
#' }
1414
#' @source {Magnuson, J.J., S.R. Carpenter, and E.H. Stanley. 2021. North Temperate Lakes LTER: Ice Duration - Madison Lakes Area 1853 - current ver 35. Environmental Data Initiative.}
15-
#' \url{https://doi.org/10.6073/pasta/ab31f2489ee436beb73fc8f1d0213d97}
15+
#' \doi{10.6073/pasta/ab31f2489ee436beb73fc8f1d0213d97}
1616
"ntl_icecover"
1717

1818

‎R/nwt_pikas_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -14,6 +14,6 @@
1414
#' \item{elev_m}{a number denoting the elevation in meters of the sampling station where the fecal sample was collected}
1515
#' }
1616
#' @source {Whipple, A. and Niwot Ridge LTER. 2020. Physiological stress of American pika (Ochotona princeps) and associated habitat characteristics for Niwot Ridge, 2018 - 2019 ver 1. Environmental Data Initiative.}
17-
#' \url{https://doi.org/10.6073/pasta/9f95baf55f98732f47a8844821ff690d}
17+
#' \doi{10.6073/pasta/9f95baf55f98732f47a8844821ff690d}
1818

1919
"nwt_pikas"

‎R/pie_crab_doc.R

+1-1
Original file line numberDiff line numberDiff line change
@@ -15,5 +15,5 @@
1515
#' \item{name}{full name of research site; LTER, Long-Term Ecological Research site; NERR, National Estuarine Research Reserve}
1616
#' }
1717
#' @source {Johnson, D. 2019. Fiddler crab body size in salt marshes from Florida to Massachusetts, USA at PIE and VCR LTER and NOAA NERR sites during summer 2016. ver 1. Environmental Data Initiative.}
18-
#' \url{https://doi.org/10.6073/pasta/4c27d2e778d3325d3830a5142e3839bb}
18+
#' \doi{10.6073/pasta/4c27d2e778d3325d3830a5142e3839bb}
1919
"pie_crab"

‎README.Rmd

+4-4
Original file line numberDiff line numberDiff line change
@@ -29,7 +29,7 @@ Site](https://github.com/lter/lterdatasampler/workflows/pkgdown/badge.svg)](http
2929

3030
<!-- badges: end -->
3131

32-
# lterdatasampler <a href='https://lter.github.io/lterdatasampler'><img src="man/figures/logo.png" id="home_logo" align="right" height="180"/></a>
32+
# lterdatasampler <a href='https://lter.github.io/lterdatasampler/'><img src="man/figures/logo.png" id="home_logo" align="right" height="180"/></a>
3333

3434
The mission of the [Long Term Ecological Research program (LTER)
3535
Network](https://lternet.edu/) is to “*provide the scientific community,
@@ -54,7 +54,7 @@ We encourage you to explore existing LTER [teaching and training
5454
initiatives](https://lternet.edu/education-and-training/), and the
5555
**many** other available LTER datasets which can be accessed via the
5656
[Environmental Data
57-
Initiative](https://environmentaldatainitiative.org/). Please contact
57+
Initiative](https://edirepository.org). Please contact
5858
cited researchers directly to discuss using data for research purposes
5959
or in publication.
6060

@@ -73,7 +73,7 @@ remotes::install_github("lter/lterdatasampler")
7373
Dataset samples currently included in the package are summarized below;
7474
see individual Articles for data and source details. Note: the three
7575
letter prefix for each dataset indicates the LTER site (see full list of
76-
site abbreviations [here](https://lternet.edu/site/)).
76+
[site abbreviations](https://lternet.edu/site/)).
7777

7878
- [`and_vertebrates`](https://lter.github.io/lterdatasampler/reference/and_vertebrates.html):
7979
Records for aquatic vertebrates (cutthroat trout and salamanders) in
@@ -174,7 +174,7 @@ People / organizations who supported this project:
174174
- LTER Education Committee
175175
- All the LTER Researchers and Site PIs
176176
- Cyber-infrastructures:
177-
[EDI](https://environmentaldatainitiative.org/) and
177+
[EDI](https://edirepository.org/) and
178178
[DataONE](https://www.dataone.org/)
179179

180180
We gratefully acknowledge all authors and contributors of the

0 commit comments

Comments
 (0)