Issues with gosummaries

[chinanicole]

Hello,

I'm trying to run GOsummaries in RStudio and am following the GOSummaries basics PDF from bioconductor; however, when calling gosummaries on the gene list I made, I get the following error:

"Error in function (type, msg, asError = TRUE) : Server aborted the SSL handshake"

The full traceback is:
8. fun(structure(list(message = msg, call = sys.call()), class = c(typeName, "GenericCurlError", "error", "condition")))
7. function (type, msg, asError = TRUE) { if (!is.character(type)) { i = match(type, CURLcodeValues) ...
6. .postForm(curl, .opts, .params, style)
5. RCurl::postForm(my_url, .opts = gp_globals$rcurl_opts, .params = query_params)
4. gProfileR::gprofiler(query = gl, organism = organism, ordered_query = ordered_query, max_set_size = max_set_size, hier_filtering = hier_filtering, max_p_value = max_p_value, ...)
3. annotate.gosummaries(res, organism = organism, go_branches = go_branches, max_p_value = max_p_value, min_set_size = min_set_size, max_set_size = max_set_size, max_signif = max_signif, ordered_query = ordered_query, hier_filtering = hier_filtering, ...)
2. gosummaries.default(gl)

1. gosummaries(gl)

Here is the R code I am running (gene lists greatly simplified):
genes1 <- c("FBgn0040736", "FBgn0035715")
genes2 <- c("FBgn0266974","FBgn0267978")
gl = list(List = list(genes1, genes2))
gs = gosummaries(gl)

Any advice would be appreciated, thanks!

[raivokolde]

Try to set organism. For example:
gs = gosummaries(gl, organism = "dmelanogaster")