adding processing scripts for ticket #19667 Russell#12
adding processing scripts for ticket #19667 Russell#12angelchen7 wants to merge 3 commits intoNCEAS:masterfrom
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R/Angel Chen/ticket #19667 Russell.R
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| descriptions1 <- c("number of seconds elapsed since 03/02/2008 in Coordinated Universal Time (UTC), recorded when a day began", "number of seconds elapsed since 03/02/2008 in Coordinated Universal Time (UTC), recorded when a day ended") | ||
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| wavenumbers <- seq(400, 4000, by=1.92) |
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this works since you know what the step is for the wavenumbers (and it is an equal step across all the data), but the way I would have done this would leverage the values already in the columns. See suggestion below which leverages the dplyr functions
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w_atts <- data.frame(attributeName = names(dat)) %>%
mutate(wavenumbers = gsub("_", ".", attributeName)) %>%
mutate(attributeDescription = paste("absorbance at wavenumber", wavenumbers)) %>%
select(-wavenumbers)
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you can then use that to build the rest of your attributes, and stick on the top two using rbind or add them in shiny_attributes
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| pkg <- get_package(adc, 'resource_map_urn:uuid:2a957ad3-1c0f-44e9-b79d-5ea2a2ed76bf', file_names = TRUE) | ||
| doc <- read_eml(getObject(adc, pkg$metadata)) | ||
| emld::eml_version("eml-2.1.1") |
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I usually do this near the end but it's smart to do it at the beginning. I just don't usually think about it until the end
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hopefully this will be something we won't need to think about as much moving forward with everything in 2.2.0 but yeah we need to keep this in mind when working with older datasets
| doc <- eml_add_entity_system(doc) | ||
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| CEBP_HumanGeneticData_Summary <- read_csv("~/ticket #20492 Norman/CEBP_HumanGeneticData_Summary.csv") | ||
| out <- shiny_attributes(CEBP_HumanGeneticData_Summary, NULL) |
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I'm curious what this step was used for, could you explain?
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@eeerika
Oops, sorry I didn't see your message until now! If I have to make attributes list from scratch and if there are a lot of attribute names, I read in the csv file and plug that as an argument to shiny_attributes() so that the attribute names are already there for me in the shiny app when I open it! I hope that explains it well enough....
| doc <- read_eml(getObject(adc, pkg$metadata)) | ||
| emld::eml_version("eml-2.1.1") | ||
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| set_rights_and_access(adc, pids = unlist(pkg), subject = 'http://orcid.org/0000-0002-5718-6032') |
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does just writing the subject with http:// instead of https:// replace the need for this step: subject <- sub("^https://", "http://", subject)?
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yes it is convenient for if you have lots of orcids
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| datamgmt::categorize_dataset("doi:10.18739/A2CZ32589", c("archaeology","anthropology"), "Angel") | ||
| datamgmt::categorize_dataset("doi:10.18739/A2NC5SD2M", c("archaeology","anthropology"), "Angel") | ||
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nice! seems like you've been able to simplify some steps down through your experience which is cool!
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