I am not able to create a twitter token using create_token from rtweet package:
library (rtweet)
twitter_token <- create_token(app = appname, # as set in Twitter API
consumer_key = key, # as set in Twitter API
consumer_secret = secret) # as set in Twitter API
The output I get is:
Error in init_oauth1.0(self$endpoint, self$app, permission = self$params$permission, :
Forbidden (HTTP 403).
I followed the instructions to setup Twitter API as disclosed in http://rtweet.info/articles/auth.html, and triple checked that the Callback URL was properly set as http://127.0.0.1:1410.
I also tried:
createTokenNoBrowser<- function(appName, consumerKey, consumerSecret,
accessToken, accessTokenSecret) {
app <- httr::oauth_app(appName, consumerKey, consumerSecret)
params <- list(as_header = TRUE)
credentials <- list(oauth_token = accessToken,
oauth_token_secret = accessTokenSecret)
token <- httr::Token1.0$new(endpoint = NULL, params = params,
app = app, credentials = credentials)
return(token)
}
It seems to work, but when I call
rt <- stream_tweets(q = q, file_name = filename,token = twitter_token)
I get: Error: Not a valid access token.
What might be going wrong?
I am currently using R 3.5.0. Thank you.
> sessionInfo()
R version 3.5.0 (2018-04-23)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)
Matrix products: default
locale:
[1] LC_COLLATE=Portuguese_Brazil.1252 LC_CTYPE=Portuguese_Brazil.1252 LC_MONETARY=Portuguese_Brazil.1252
[4] LC_NUMERIC=C LC_TIME=Portuguese_Brazil.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] rtweet_0.6.4
loaded via a namespace (and not attached):
[1] readr_1.1.1 httr_1.3.1 compiler_3.5.0 magrittr_1.5 R6_2.2.2 hms_0.4.2 tools_3.5.0 pillar_1.2.3
[9] curl_3.2 tibble_1.4.2 yaml_2.1.19 Rcpp_0.12.17 jsonlite_1.5 openssl_1.0.1 pkgconfig_2.0.1 rlang_0.2.1
This issue has been fixed in the newest version of rtweet on Github!
I believe create_token() is deprecated in the latest version of rtweet. Instead, you should use rtweet_app() or rtweet_bot().
Related
I can't seem to manage to get the action button in shiny working. Nothing happens when i press "click me" and there is no error message.
Does anyone have a clue what might be wrong?
library(shiny)
ui <- fluidPage(
tags$head(tags$script(src = "message-handler.js")),
actionButton("do", "Click Me")
)
server <- function(input, output, session) {
observeEvent(input$do, {
session$sendCustomMessage(type = 'testmessage',
message = 'Thank you for clicking')
})
}
shinyApp(ui, server)
here is my session info:
> sessionInfo()
R version 3.6.3 (2020-02-29)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19043)
Matrix products: default
locale:
[1] LC_COLLATE=Swedish_Sweden.1252 LC_CTYPE=Swedish_Sweden.1252 LC_MONETARY=Swedish_Sweden.1252 LC_NUMERIC=C LC_TIME=Swedish_Sweden.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] shiny_1.4.0.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.6 packrat_0.5.0 digest_0.6.27 later_1.1.0.1 mime_0.9 R6_2.5.0 xtable_1.8-4 jsonlite_1.7.2 magrittr_2.0.1
[10] rlang_0.4.10 promises_1.1.0 tools_3.6.3 httpuv_1.5.2 rsconnect_0.8.16 fastmap_1.0.1 compiler_3.6.3 htmltools_0.5.1.1
In my toy package, I have defined %+% operator as an alias to paste0(). Trying to reduce interference with other packages, I realized it the following way:
`%+%` <- function(...) UseMethod("%+%")
`%+%.character` <- paste0
`%+%.numeric` <- paste0
`%+%.default` <- function (arg1, arg2){
e <- parent.env(getEnvByName(.GlobalEnv,'package:mypackagename'));
if (exists('%+%', envir = e)) get('%+%',envir = e)(arg1,arg2);
}
i.e. I override it only for character and numeric arguments, otherwise it tries to find if the method was previously defined.
It was working just fine until recently when it started giving an error:
'a' %+% 'b'
# Error in UseMethod("%+%") :
# no applicable method for '%+%' applied to an object of class "character"
It only fails when called outside of the package. If I define a function within the package, it works correctly:
# testab2() is defined in R file as a part of the package:
testab2 <- function(inpA, inpB){
print (inpA %+% inpB)
}
# when called outside of the package:
testab2('a','b')
# ab
I am pretty sure I didn't change anything in my code, so I'm wondering if it could be caused by R update. What could have changed and how to make it work back?
P.S. getEnvByName() is my helper function that searches for an object in parent environments:
getEnvByName <- function(inpEnv=.GlobalEnv, lookFor){
e <- inpEnv;
while (environmentName(e) != 'R_EmptyEnv' & environmentName(e)!=lookFor) e <- parent.env(e);
if (environmentName(e) != lookFor) return(NULL);
return(e);
}
And the exporting was done by the following lines in the NAMESPACE file:
exportPattern("^[[:alpha:]]+")
exportPattern("%.*%")
export("%+%.default")
export("%+%.character")
P.P.S. sessionInfo:
R version 4.0.2 (2020-06-22)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18363)
Matrix products: default
locale:
[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C LC_TIME=English_United States.1252
system code page: 1251
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] vautils_0.1.1.105 magrittr_1.5 data.table_1.13.0
loaded via a namespace (and not attached):
[1] dplyr_1.0.2 crayon_1.3.4 grid_4.0.2 R6_2.4.1 lifecycle_0.2.0 gtable_0.3.0
[7] scales_1.1.1 ggplot2_3.3.2 pillar_1.4.6 rlang_0.4.7 rstudioapi_0.11 generics_0.0.2
[13] vctrs_0.3.4 ellipsis_0.3.1 tools_4.0.2 glue_1.4.2 purrr_0.3.4 munsell_0.5.0
[19] compiler_4.0.2 pkgconfig_2.0.3 colorspace_1.4-1 tidyselect_1.1.0 tibble_3.0.3
To export S3 methods, your NAMESPACE file needs to (in your case) contain the following declarations:
export(`%+%`)
S3method(`%+%`, default)
S3method(`%+%`, character)
S3method(`%+%`, numeric)
That is, export the %+% generic, and declare S3 methods for the methods.
Better yet, instead of manually editing the NAMESPACE file use ‘roxygen2’, which generates the correct declarations for you based on the #export documentation tag.
I want my function to implement a dialog with an editable text box using a shiny app.
I.e. calling the function should open a shiny app displaying some text for the user to edit, then press the 'Ok' button to close the app and return the edited text or the 'Cancel' button to close the app and return an empty character vector.
My code runs fine on Windows (Rstudio desktop).
However on Linux (Rstudio Server Pro) the shiny page is displayed but the interface seems to be greyed, the text can be edited but the buttons are not responsive. Why?
--EDIT--
The unresponsiveness problem occurs with Internet Explorer and Microsoft Edge, not Chrome. Although the page in Chrome is greyed too, and opening Chrome's 'Inspect' tool shows 2 errors:
(1) shinyapp.js:83 WebSocket connection to 'wss://XXXXXXXXXXXXXXX/websocket/' failed: Error during WebSocket handshake: net::ERR_CONNECTION_RESET
(2) Uncaught TypeError: Cannot read property 'readyState' of null
at ShinyApp.$sendMsg (shiny.min.js:3)
at ShinyApp.sendInput (shiny.min.js:3)
at InputBatchSender.$sendNow (shiny.min.js:3)
[where XXXXXXXXXXXXXXX stands for my Rstudio Server's URL]
library(shiny)
getMyText <- function(default = "This is my input\n- Anonymous") {
require(stringr)
ui <- fluidPage(
textAreaInput("myTextBox", "Edit text", paste(default, collapse="\n"),
width = "600px", height = "400px"),
actionButton("okBtn", "Ok"),
actionButton("cancelBtn", "Cancel")
)
server <- function(input, output) {
observe({
if(input$cancelBtn > 0){
stopApp(character(0))
}
});
observe({
if(input$okBtn > 0){
stopApp(unlist(str_split(input$myTextBox, "\n")))
}
});
}
return(runApp(list(ui = ui, server = server)))
}
args <- getMyText()
sessionInfo:
sessionInfo()
R version 3.5.0 (2018-04-23)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: Red Hat Enterprise Linux Server 7.4 (Maipo)
Matrix products: default
BLAS/LAPACK: /usr/lib64/R/lib/libRblas.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8
[6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] stringr_1.3.1 shiny_1.4.0.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.4 digest_0.6.18 later_1.0.0 mime_0.6 R6_2.4.1 xtable_1.8-3 magrittr_1.5 rlang_0.4.5
[9] stringi_1.1.7 promises_1.1.0 tools_3.5.0 httpuv_1.5.2 yaml_2.2.0 fastmap_1.0.1 compiler_3.5.0 htmltools_0.4.0
>
The greyed out screen to me sounds like your observe block is firing before all inputs are set up. This can be remedied in two ways:
observe({
req(input$cancelBtn)
if (input$cancelBtn > 0) {
stopApp(character(0))
}
})
observeEvent(input$cancelBtn, {
if (input$cancelBtn > 0) {
stopApp(character(0))
}
}, ignoreNULL = TRUE) # which is the default, including it for clarity
FYI: win10, R-3.5.3, shiny-1.4.0
It turns out this problem was due to a server (mis)configuration.
Interestingly, I found out that setting option shiny.host to the IP address of the server (instead of the default 127.0.0.1) enabled interaction with the shiny app, e.g.:
options(shiny.host = '10.1.2.3')
The following code could be used to set this option dynamically on a Linux host, useful in case load balancing gets the user connected to one of several Rstudio servers:
if (Sys.info()["sysname"] == 'Linux') {
hostIP <- system("hostname -I | awk '{print $1}'", intern = TRUE)
options(shiny.host = hostIP)
}
I'm building a package but the documentation must be in Spanish, including the tilde character (i.e. í, é).
I have a simple function like this in an R file:
#' Función con acénto
#'
#' Permite instalar rápidamente de manera local un paquete previamente descargado
#' #param direccion La dirección del archivo local, poner .zip
#' #keywords FAhorroDS
#' #export
#' #encoding UTF-8
#' #author Eduardo Flores
#' #examples
#' FA_InstalarLocal("paquete_x_1.10.zip")
FA_InstalarLocal<-function(direccion)
{
install.packages(direccion, repos = NULL, type="source")
}
And building the Rd via devtools::document(). The Rd file in man generated seems fine:
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/test.R
\encoding{UTF-8}
\name{FA_InstalarLocal}
\alias{FA_InstalarLocal}
\title{Función con acénto}
\usage{
FA_InstalarLocal(direccion)
}
\arguments{
\item{direccion}{La dirección del archivo local, poner .zip}
}
\description{
Permite instalar rápidamente de manera local un paquete previamente descargado
}
\examples{
FA_InstalarLocal("paquete_x_1.10.zip")
}
\author{
Eduardo Flores
}
\keyword{FAhorroDS}
However even if i'm specifying the encoding both here and in the DOCUMENTATION file, when I run: system("R CMD Rd2pdf . --output=manual.pdf --force"), I get the following error:
Hmm ... looks like a package
Converting Rd files to LaTeX Warning: ./man/FA_InstalarLocal.Rd:6: Some input could not be re-encoded to ASCII
When I see the package, the description is okay, but the title of the function turns out as NA.
Any ideas as to why everything else (the description has a tilde) is being correctly encoded but not the title?
> sessionInfo()
R version 3.2.4 Revised (2016-03-16 r70336)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1
locale:
[1] LC_COLLATE=Spanish_Mexico.1252 LC_CTYPE=Spanish_Mexico.1252
[3] LC_MONETARY=Spanish_Mexico.1252 LC_NUMERIC=C
[5] LC_TIME=Spanish_Mexico.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] fahorro_0.1 devtools_1.10.0 magrittr_1.5 readxl_0.1.0 dplyr_0.4.3
[6] FAhorroDS_1.0.1
loaded via a namespace (and not attached):
[1] Rcpp_0.11.6 roxygen2_5.0.1 R6_2.1.2 xlsx_0.5.7 stringr_1.0.0
[6] plyr_1.8.3 tools_3.2.4 parallel_3.2.4 DBI_0.3.1 withr_1.0.0
[11] assertthat_0.1 digest_0.6.9 rJava_0.9-8 RODBC_1.3-12 xlsxjars_0.6.1
[16] memoise_1.0.0 stringi_1.0-1 SOAR_0.99-11
Hello Bioconductor users,
I am playing around with ChipDb classes, in particular the illuminaHumanv4.db package. I am simply trying to create a table of annotations from that db using the select() method, as described in the help section.
I believe the only library needed to test this is
library("illuminaHumanv4.db")
The cols() function works fine
> cols(illuminaHumanv4.db)
[1] "PROBEID" "ENTREZID" "PFAM" "IPI" "PROSITE" "ACCNUM" "ALIAS" "CHR" "CHRLOC" "CHRLOCEND"
[11] "ENZYME" "MAP" "PATH" "PMID" "REFSEQ" "SYMBOL" "UNIGENE" "ENSEMBL" "ENSEMBLPROT" "ENSEMBLTRANS"
[21] "GENENAME" "UNIPROT" "GO" "EVIDENCE" "ONTOLOGY" "GOALL" "EVIDENCEALL" "ONTOLOGYALL" "OMIM" "UCSCKG"
The keytypes() function works fine too
> keytypes(illuminaHumanv4.db)
[1] "ENTREZID" "PFAM" "IPI" "PROSITE" "ACCNUM" "ALIAS" "CHR" "CHRLOC" "CHRLOCEND" "ENZYME"
[11] "MAP" "PATH" "PMID" "REFSEQ" "SYMBOL" "UNIGENE" "ENSEMBL" "ENSEMBLPROT" "ENSEMBLTRANS" "GENENAME"
[21] "UNIPROT" "GO" "EVIDENCE" "ONTOLOGY" "GOALL" "EVIDENCEALL" "ONTOLOGYALL" "PROBEID" "OMIM" "UCSCKG"
However, when I run the keys() function, I am getting the following error
> keys(illuminaHumanv4.db)
Error in (function (classes, fdef, mtable) :
unable to find an inherited method for function ‘keys’ for signature ‘"ChipDb"’
According to the documentation, the ChipDb class should inherit this function from the AnnotationDb class. This causes a error when I try to run the select() function, since one of the arguments to pass is generated by the keys() function.
I have updated my environment (R 3.0.1, bioconductor 2.12) and all my packages and here is my sessionInfo()
R version 3.0.1 (2013-05-16)
Platform: x86_64-apple-darwin10.8.0 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] grid splines parallel stats graphics grDevices utils datasets methods base
other attached packages:
[1] hgu95av2.db_2.9.0 BiocInstaller_1.10.2 gplots_2.11.3 KernSmooth_2.23-10 caTools_1.14 gdata_2.13.2
[7] gtools_3.0.0 hash_2.2.6 shiny_0.6.0 GO.db_2.9.0 illuminaHumanv4.db_1.18.0 org.Hs.eg.db_2.9.0
[13] RSQLite_0.11.4 DBI_0.2-7 annotate_1.38.0 AnnotationDbi_1.22.6 genefilter_1.42.0 WGCNA_1.27-1
[19] doParallel_1.0.3 iterators_1.0.6 foreach_1.4.1 MASS_7.3-27 reshape_0.8.4 plyr_1.8
[25] cluster_1.14.4 Hmisc_3.12-2 survival_2.37-4 flashClust_1.01-2 dynamicTreeCut_1.21 impute_1.34.0
[31] Biobase_2.20.1 BiocGenerics_0.6.0
loaded via a namespace (and not attached):
[1] AnnotationForge_1.2.2 bitops_1.0-5 codetools_0.2-8 compiler_3.0.1 digest_0.6.3 httpuv_1.0.6.3 IRanges_1.18.2
[8] lattice_0.20-15 Rcpp_0.10.4 RJSONIO_1.0-3 stats4_3.0.1 tools_3.0.1 XML_3.95-0.2 xtable_1.7-1
Let me know if anyone has run in the same problem recently.
Thank you!