* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’ * installing *source* package ‘neotoma2’ ... ** package ‘neotoma2’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘toJSON’ in package ‘neotoma2’ Creating a generic function for ‘write.csv’ from package ‘utils’ in package ‘neotoma2’ ** help *** installing help indices converting help for package ‘neotoma2’ finding HTML links ... done add_chronology-collunit-chronology-data.frame-method html add_chronology html as.data.frame-authors-method html as.data.frame-chronologies-method html as.data.frame-chronology-method html as.data.frame-collunit-method html as.data.frame-collunits-method html as.data.frame-contact-method html as.data.frame-contacts-method html as.data.frame-dataset-method html as.data.frame-datasets-method html as.data.frame-publication-method html as.data.frame-publications-method html as.data.frame-site-method html as.data.frame-sites-method html as.data.frame-specimen-method html as.data.frame-specimens-method html as.list-sites-method html author-class html authors-class html build_chron html build_collunits html build_dataset html build_sample html build_sites html build_specimen html c-chronologies-method html c-collunits-method html c-contact-method html c-contacts-method html c-datasets-method html c-missingOrNULL-method html c-publications-method html c-sites-method html c-specimens-method html cash-chronologies-method html cash-chronology-method html cash-collunit-method html cash-collunits-method html cash-contact-method html cash-contacts-method html cash-dataset-method html cash-datasets-method html cash-publication-method html cash-sample-method html cash-samples-method html cash-set-chronology-method html cash-set-collunit-method html cash-set-dataset-method html cash-set-site-method html cash-set-specimen-method html cash-site-method html cash-sites-method html cash-specimen-method html cash-specimens-method html check_args html check_contacts html check_contacts.contacts html chroncontrols-site-method html chroncontrols-sites-method html chroncontrols html chronologies-class html chronologies-collunit-method html chronologies-collunits-method html chronologies-site-method html chronologies-sites-method html chronologies html chronology-class html cite_data-site-method html cite_data-sites-method html cite_data html collunit-class html collunits-class html collunits-site-method html collunits-sites-method html collunits html contact-class html contacts-class html coordinates-sites-method html coordinates html dataset-class html datasets-class html datasets-collunit-method html datasets-collunits-method html datasets-site-method html datasets-sites-method html datasets html doi-publication-method html doi-site-method html doi-sites-method html doi html filter html filter.sites html get_contacts html get_contacts.default html get_contacts.numeric html get_datasets html get_datasets.default html get_datasets.numeric html get_datasets.site html get_datasets.sites html get_downloads html get_downloads.character html get_downloads.numeric html get_downloads.sites html get_manual html get_publications html get_publications.default html get_publications.numeric html get_publications.publication html get_publications.publications html get_sites html get_sites.default html get_sites.numeric html get_sites.sites html get_specimens html get_specimens.default html get_specimens.numeric html get_specimens.sites html get_stats html get_table html getids html getids.collunit html getids.collunits html getids.site html getids.sites html length-chronologies-method html length-collunits-method html length-datasets-method html length-publications-method html length-samples-method html length-sites-method html length-specimens-method html missingOrNULL-class html names-collunit-method html names-contact-method html names-dataset-method html names-publication-method html names-publications-method html names-site-method html names-specimen-method html newURL html parseURL html parse_site html parsebody html pingNeotoma html pipe html plot-sites-method html plotLeaflet-site-method html plotLeaflet-sites-method html plotLeaflet html publication-class html publications-class html repositories-class html repository-class html sample-class html samples-class html samples-collunit-method html samples-collunits-method html samples-site-method html samples-sites-method html samples html selectMatch-publication-logical-method html selectMatch-publication-numeric-method html selectMatch html set_chronology html set_collunit html set_contact html set_dataset html set_default-chronologies-method html set_default html set_publications html set_sample html set_server html set_site html show-collunit-method html show-collunits-method html show-contact-method html show-contacts-method html show-dataset-method html show-datasets-method html show-publication-method html show-publications-method html show-site-method html show-sites-method html show-specimen-method html show-specimens-method html showMatch-publication-method html showMatch html site-class html sites-class html specimen-class html specimens-class html specimens-collunit-method html specimens-collunits-method html specimens-site-method html specimens-sites-method html specimens html sub-collunits-numeric-method html sub-datasets-numeric-method html sub-site-character-method html sub-site-numeric-method html sub-sites-numeric-method html sub-specimens-numeric-method html sub-sub-chronologies-numeric-method html sub-sub-collunits-numeric-method html sub-sub-contacts-numeric-method html sub-sub-datasets-numeric-method html sub-sub-publications-numeric-method html sub-sub-samples-numeric-method html sub-sub-sites-numeric-method html sub-sub-specimens-numeric-method html sub-subset-collunits-ANY-ANY-ANY-method html sub-subset-datasets-ANY-ANY-ANY-method html sub-subset-publications-ANY-ANY-ANY-method html sub-subset-sites-ANY-ANY-ANY-method html sub-subset-specimens-ANY-ANY-ANY-method html subset-collunit-character-ANY-ANY-method html subset-collunit-numeric-ANY-ANY-method html subset-dataset-character-ANY-ANY-method html subset-dataset-numeric-ANY-ANY-method html subset-site-character-ANY-ANY-method html subset-site-numeric-ANY-ANY-method html subset-specimen-character-ANY-ANY-method html subset-specimen-numeric-ANY-ANY-method html summary-sites-method html taxa-collunit-method html taxa-collunits-method html taxa-site-method html taxa-sites-method html taxa html toJSON-sites-method html toJSON html toWide html write.csv-chronologies-method html write.csv-collunits-method html write.csv-datasets-method html write.csv-sites-method html write.csv-specimens-method html *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (neotoma2)