cache_file_info() to get information on possibly bad files in your cache - which you can use to remove files as you see fit (#142) (#174) thx @lucymerobinson for the pushas.ft_data() to create the same output as ft_get() returns, but instead pulls all files from your cache (#142) (#172) thanks @lucymerobinsonft_get() gains new attribute of a data.frame in the errors slot with information on each article and what error we collected or NA_character_ if none; should help with sorting out problems across all requests (#176)ft_search() gains support for facets; see ?scopus_search (#170) thanks @lucymerobinsonft_search() for microsoft academic plugin (#154)ft_search() for scopus plugin - we weren’t looping over requests correctly (#161)ft_links() - when result of ft_search() passed to ft_links with bad urls or with more than 1 then ft_links was failing; fix by filtering on intended-application field from Crossref via fix in dependency package crminer (#173)ft_get() to check for an invalid file that gave a 200 status code (so passes the status code check) (#175)start parameter in ft_search() for Scopus to offset what record a query starts at (#180)ft_get() for entrez data source to loop internally when more than 50 ids requested to avoid 414 http error (URI too long) (#167) thanks @t088httpshttps for all doi.org requests (#155) thanks @katrinleinweberopts parameters in ft_search() (#161)ft_get() function (#163) thanks to @low-decariesuppdata package in the README (#164)ft_collect() that we are saving files to disk locally only (#165)whisker package dependency (#156)?scopus_search (#152)ft_get() added (#117) thanks @andreifoldesft_search() docs that for some sources we loop internally to get whatever number of records the user wants, while others we can not (#162)Continuing to focus the scope of this package the functions ft_chunks() and ft_tabularize() are now deprecated, and will be removed (defunct) in a future version of this package. See the new package https://github.com/ropensci/pubchunks for the same and better functionality. (#181)
get_ext() which parses either xml, pdf, or plain text from files on disk - it was failing on Linux maxchines due to a faulty regex (#151)Check out the fulltext manual for detailed documentation.
fulltext has undergone a re-organization, which includes a bump in the major version to v1 to reinforce the large changes the package has undergone. Changes include:
ft_ prefix. e,g, chunks is now ft_chunksft_get has undergone major re-organization - biggest of which may be that all full text XML/plain text/PDF goes to disk to simplify the user interface.storr is now imported to manage mapping between real DOIs and file paths that include normalized DOIs - and aids in the function ft_table() for creating a data.frame of text resultsft_get() overhaul, the only option is to write to disk. Before we attempted to provide many different options for saving XML and PDF data, but it was too complicated. This has implications for using the output of ft_get() - the output is only the paths to the files - use ft_collect() to collect the text if you want to use ft_chunks() or other fulltext functions downstream.chunks changed to ft_chunks (#139)collect changed to ft_collect (#139)tabularize changed to ft_tabularize (#139)get_text changed to ft_text (#139)ft_get() gains new parameter try_unknown that attempts to try to find full text for a given DOI/ID even if we don’t have code plugins specifically for that publisher. This includes trying to get a full text link from Crossref and the https://ftdoi.org API (#137)ft_table that outputs a data.frame of all downloaded articles with DOIs, filenames, and the text of each article, similar to the readtext package (#134)ft_abstract for fetching abstracts, including support for getting abstracts from Scopus, Microsoft Academic, Crossref, and PLOS (#98) (#115)ft_abstract and in ft_search via the microdemic package (#99) (#115)ft_get() gains an S3 method for ft_links - that is, you can pass the output of ft_links() to ft_get() (#103)ft_get() gains many new plugins, including for: Informa, Scientific Societies, Europe PMC, Elsevier, Wiley, xxx (#121) (#112) (#52) (#96) (#120) (#xxx)ft_get()/ft_links()/ft_search(): ft_get_ls()/ft_links_ls()/ft_search_ls() (#122)ft_chunks() gains support for Elsevier XML (#116) (#118)ft_search() and ft_abstract (#95)ftxt_cache for managing/listing details of cached files from ft_get()ft_search() gains Scopus and Microsoft Academic optionsft_serialize() loses file, rcache, and redis options, retaining options for converting between list, JSON, and XML formats.?fulltext-package gains new sections on authentication and rate limitingft_get(); see ?ft_get-warningsWith the re-focusing of the package these functions seemed out of scope, so have been removed:
pdfx, pdfx_html, and pdfx_targz are now defunct (#145)ft_extract_corpus is now defunctThe following functions have changed names. Usually I’d mark functions as deprecated in a version, then defunct in the next version, but since we’re moving to v1 here, it made sense to rip the bandade off and make the old function names defunct.
chunks is now defunct - function name changed to ft_chunkstabularize is now defunct - function name changed to ft_tabularizecollect is now defunct - function name changed to ft_collectget_text is now defunct - function name changed to ft_textOther defunct:
cache_clear was never working anyway, and is now removed.Along with the above changes and others the packages R.cache, rredis, digest, and tm have been removed from Imports
httr with crul mostly throughtout the package (#104)ft_get(). DOIs are normalized before using to create file paths (#138)ft_get() should now be correctly named lists after the publisher and the DOI/ID (#126)hoardr package for managing cached files (#124)pdftools now - done away with other options (#82)biorxiv_search is now exported but the man file is hidden (using roxygen2 directive @internal), so you can still get to the manual file doing ?biorxiv_searchrplos because we need to write to disk instead of return parsed XML output (#148)ft_get() now appropriately using cached version of file if found (#130)type parameter in ft_get() was ignored previously, now definitely used. (#128)biorxiv_search (#97) (#113)rcrossref and rplos versions that use dplyr::bind_rows() instead of dplyr::rbind_all() to avoid errors/warnings (#89) (#90)from parameter for ft_get_si() to clarify its use, and fails better when used inappropriately (#68) (#77)ft_get_si() now gives file type information as attributes so that downstream uses can access that information instead of having to guess file types (#69)ft_get_si() to work with changes in the publisher Wiley’s URL changes (#71) (#73)ft_get_si() to grab supplementary files for any article (#61) (#62) - thanks @willpearseft_links() to grab links for the full text version of an article from entire output of ft_search(), their individual components (i.e., data sources), or from character vector of DOIs (#36)ft_search() (#63)ft_get() to reduce code duplication (#48)ft_search() where limit integer was too big (#57)ft_get() to create a directory if it doesn’t exist already (#56)ft_search() that caused problems in some scenarios (#55)pdfx() function when pdf is not useable, that is, e.g., a scanned pdf (#53)