Open jeneaadams opened 1 year ago
Describe the bug Hi, I've just started working with the enrichr API per instructions in #11. I get this error:
in this penultimate line of code data_ben <- fromJSON(content(response, as = "text")).
data_ben <- fromJSON(content(response, as = "text"))
To Reproduce My code is below
baseurl = "https://maayanlab.cloud/speedrichr/api/" #1. Upload a gene set for enrichment analysis genelist = readLines("~/foreground_gene_list.txt") description = "Foreground gene list" ENRICHR_URL = paste0(baseurl, "addList") payload = list( list = upload_file("~/foreground_gene_list.txt"), description = description ) response <- POST(ENRICHR_URL, body = payload, encode = "multipart") data <- fromJSON(content(response, as = "text")) print(toJSON(data, pretty = TRUE)) #2. upload the background backgroundgenes = readLines("~/background_gene_list.txt") ENRICHR_URL = paste0(baseurl, "addbackground") payload = list( background = backgroundgenes ) response = POST(ENRICHR_URL, body = payload) data_back = fromJSON(content(response, as = "text")) print(toJSON(data_back, pretty = T)) #3. List available libraries ENRICHR_URL <- paste0(baseurl, "listlibs") response <- GET(ENRICHR_URL) data_libs <- fromJSON(content(response, as = "text")) print(toJSON(data_libs, pretty = TRUE)) #4. pass IDs library_name = "GO_Biological_Process_2018" ENRICHR_URL = paste0(baseurl, "backgroundenrich") payload = list( userListId = data$userListId, backgroundid = data_back$backgroundid, backgroundType = library_name ) response <- POST(ENRICHR_URL, body = payload) data_ben <- fromJSON(content(response, as = "text")) #error print(toJSON(data_ben, pretty = TRUE))
Screenshots
Preview of the TXT file format of my gene lists:
Desktop (please complete the following information):
Additional context Add any other context about the problem here.
Describe the bug Hi, I've just started working with the enrichr API per instructions in #11. I get this error:
in this penultimate line of code
data_ben <- fromJSON(content(response, as = "text"))
.To Reproduce My code is below
Screenshots
Preview of the TXT file format of my gene lists:![image](https://github.com/MaayanLab/enrichr_issues/assets/54278292/a5063cb2-dadf-4c0c-94e7-3284678b0b08)
Desktop (please complete the following information):
Additional context Add any other context about the problem here.