Closed SimonGoring closed 9 years ago
sckott
commented
9 years ago @SimonGoring Sorry about the messiness. Their API returns deeply nested data, and I've tried to clean it up. I've tried to make parsing fast by using jsonlite C based parser, but I'll have to do it manually, but shouldn't make a big speed difference for most people.
sckott
commented
9 years ago I'll try to add some helper fxns
SimonGoring
commented
9 years ago No problem. If I can help I'd be happy to. I can see the usefulness, but right now it's hard to use, that's probably not your fault (as I mentioned in the other issue.
On Sun, Feb 8, 2015 at 8:37 PM, Scott Chamberlain notifications@github.com wrote:
@SimonGoring https://github.com/SimonGoring Sorry about the messiness. Their API returns deeply nested data, and I've tried to clean it up. I've tried to make parsing fast by using jsonlite C based parser, but I'll have to do it manually, but shouldn't make a big speed difference for most people.
— Reply to this email directly or view it on GitHub https://github.com/ropensci/rorcid/issues/9#issuecomment-73449583.
sckott
commented
9 years ago @SimonGoring can you reinstall and try again?
I tried to simplify the output a bit. e.g.,
find_simon <- orcid(query='simon goring')
id <- find_simon$data$'orcid-identifier.path'[1]
simon_record <- orcid_id(orcid = id, profile="works")
names(simon_record$`0000-0002-2700-4605`)[1] "orcid" "orcid-identifier" "orcid-preferences" "orcid-history" "type"
[6] "group-type" "client-type" "works" head(simon_record$`0000-0002-2700-4605`$works[,c(1:3,9:12)]) put-code work-type visibility publication-date.year.value publication-date.month.value
1 11910891 JOURNAL_ARTICLE NA 2014 <NA>
2 11910890 JOURNAL_ARTICLE NA 2014 <NA>
3 11910889 JOURNAL_ARTICLE NA 2014 <NA>
4 11295421 JOURNAL_ARTICLE NA 2013 <NA>
5 11295423 JOURNAL_ARTICLE NA 2013 <NA>
6 11295620 JOURNAL_ARTICLE NA 2013 <NA>
publication-date.day.value work-external-identifiers.work-external-identifier
1 <NA> DOI, ISSN, EID, 10.1890/130017, 15409295 15409309, 2-s2.0-84894236042
2 <NA> DOI, ISSN, EID, 10.1890/120370, 15409295 15409309, 2-s2.0-84894274301
3 <NA> DOI, ISSN, EID, 10.1890/130001, 15409295 15409309, 2-s2.0-84894248195
4 <NA> ISSN, DOI, 0022-0477, 10.1111/1365-2745.12135
5 <NA> ISSN, DOI, 0022-0477, 10.1111/1365-2745.12130
6 <NA> DOI, ISSN, 10.5194/cp-9-2023-2013, 1814-9332simon_record$`0000-0002-2700-4605`$works$`work-title.title.value` [1] "Macrosystems ecology: Understanding ecological patterns and processes at continental scales"
[2] "Improving the culture of interdisciplinary collaboration in ecology by expanding measures of success"
[3] "Creating and maintaining high-performing collaborative research teams: The importance of diversity and interpersonal skills"
[4] "Pollen assemblage richness does not reflect regional plant species richness: a cautionary tale"
[5] "Linking abundances of the dung fungus Sporormiella to the density of bison: implications for assessing grazing by megaherbivores in palaeorecords"
[6] "Holocene vegetation and climate changes in the central Mediterranean inferred from a high-resolution marine pollen record (Adriatic Sea)"
[7] "Holocene vegetation and climate changes in central Mediterranean inferred from a high-resolution marine pollen record (Adriatic Sea)"
[8] "Contrasting patterns of climatic changes during the Holocene across the Italian Peninsula reconstructed from pollen data"
[9] "Using a Down-Scaled Bioclimate Envelope Model to Determine Long-Term Temporal Connectivity of Garry oak (Quercus garryana) Habitat in Western North America: Implications for Protected Area Planning"
[10] "Pollen-based reconstruction of Holocene vegetation and climate in southern Italy: the case of Lago Trifoglietti"
[11] "Paleoecological changes at Lake Cuitzeo were not consistent with an extraterrestrial impact"
[12] "Deposition times in the northeastern United States during the Holocene: establishing valid priors for Bayesian age models"
[13] "Contrasting patterns of climatic changes during the Holocene in the Central Mediterranean (Italy) reconstructed from pollen data"
[14] "Integrating Paleoecological Databases"
[15] "Holocene seasonality changes in the central Mediterranean region reconstructed from the pollen sequences of Lake Accesa (Italy) and Tenaghi Philippon (Greece)"
[16] "Are pollen-based climate models improved by combining surface samples from soil and lacustrine substrates?"
[17] "Holocene extinctions and the loss of feature diversity"
[18] "A new methodology for reconstructing climate and vegetation from modern pollen assemblages: an example from British Columbia" simon_record$`0000-0002-2700-4605`$works$`work-title.subtitle.value` [1] NA NA
[3] NA "Journal of Ecology"
[5] "Journal of Ecology" "Climate of the Past"
[7] "Climate of the Past Discussions" "Climate of the Past"
[9] "Environmental Management" "Climate of the Past"
[11] "Proceedings of the National Academy of Sciences" "Quaternary Science Reviews"
[13] "Climate of the Past Discussions" "Eos, Transactions American Geophysical Union"
[15] "The Holocene" "Review of Palaeobotany and Palynology"
[17] NA "Journal of Biogeography" @SimonGoring let me know if you are happy with the output now, i..e, if we can close this issue or not
SimonGoring
commented
9 years ago Yep, this seems a bit more manageable. Thanks Scott.
I assume this is because of a mismatch in the data types (what I'm assuming they are vs. what they actually are, but this:
works okay, although it was a lot of digging to get to the papers. A helper function might be of use here. The problem comes when I want to pull out my paper titles.
works, but a bunch of these are actually
data.frames, so I can't really pull out the work title (I just get the journal name if I usesimon.papers$'work-title', I have to usesimon.papers$'work-title'[,1].I think it's okay, but it's certainly not intuitive to muck around in these data structures. Anyway, I'll mess around a bit more. It's a fun toy to play with!