Trying to retrieve the induced subtree for all birds, using code from GetBoldOToLTree fn:
rotl::tol_induced_subtree(ott_ids=rotl::tnrs_match_names(names = input)$ott_id, label_format = "name", otl_v = otol_version)
and got the following error:
Error: HTTP failure: 400 Queries containing more than 250 strings are not supported. You may submit multiple smaller queries to avoid this
Traced the error to here:
rotl::tnrs_match_names(names = input)$ott_id
Implementing a loop to get ott_ids in batches of 250 solves this issue:
batches <- seq(1,12750, 250) for (i in batches){ aves_ott_ids <- c(aves_ott_ids, rotl::tnrs_match_names(names = aves_names[i:(i+249)])$ott_id) }
I think it's worthy to implement this intoGetBoldOToLTree function too, since, as long as rotl::tnrs_match_names does not allow querying >250 names, trying to construct trees with large sizes with BOLD will not work. What do you think?
LunaSare
commented
6 years ago
Trying to retrieve the induced subtree for all birds, using code from
GetBoldOToLTreefn:rotl::tol_induced_subtree(ott_ids=rotl::tnrs_match_names(names = input)$ott_id, label_format = "name", otl_v = otol_version)and got the following error:
Error: HTTP failure: 400 Queries containing more than 250 strings are not supported. You may submit multiple smaller queries to avoid thisTraced the error to here:
rotl::tnrs_match_names(names = input)$ott_idImplementing a loop to get ott_ids in batches of 250 solves this issue:
batches <- seq(1,12750, 250) for (i in batches){ aves_ott_ids <- c(aves_ott_ids, rotl::tnrs_match_names(names = aves_names[i:(i+249)])$ott_id) }I think it's worthy to implement this into
GetBoldOToLTreefunction too, since, as long as rotl::tnrs_match_names does not allow querying >250 names, trying to construct trees with large sizes with BOLD will not work. What do you think?