Error 503 - Githubissues

Here The error:

> GenomicDataCommons::status()
Error in .gdc_get(paste(version, "status", sep = "/"), archive = "default") : 
  Service Unavailable (HTTP 503).

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setwd("~/Desktop/LAVORO_CRO/2019/TCGA/Analisi_paper") setwd("/home/maurizio/Desktop/LAVORO_CRO/2019/TCGA/Analisi_paper/")

serarch case id

cerca caampi

data<-read.table("sarc.uid.csv",header=T) Error in file(file, "rt") : cannot open the connection In addition: Warning message: In file(file, "rt") : cannot open file 'sarc.uid.csv': No such file or directory dati2=files() %>% filter( ~ cases.project.project_id == 'TCGA-OV' &

data_type == "Gene Expression Quantification" &

analysis.workflow_type=="HTSeq - FPKM-UQ" & samples.sample_type=='Primary Tumor')) %>% ids() Error: unexpected ')' in: " data_type == "Gene Expression Quantification" & analysis.workflow_type=="HTSeq - FPKM-UQ" & samples.sample_type=='Primary Tumor'))" library(GenomicDataCommons) Loading required package: magrittr

Attaching package: ‘GenomicDataCommons’

The following object is masked from ‘package:stats’:

filter

dati2=files() %>% filter( ~ cases.project.project_id == 'TCGA-OV' &
data_type == "Gene Expression Quantification" &

analysis.workflow_type=="HTSeq - FPKM-UQ" & samples.sample_type=='Primary Tumor') %>% ids() Error in .gdc_get(sprintf("%s/%s", endpoint, "_mapping"), legacy = FALSE) : Service Unavailable (HTTP 503). resp = cases() %>% filter(~ project.project_id=='TCGA-BRCA' &

samples.sample_type=='Solid Tissue Normal') %>%

GenomicDataCommons::select(c(default_fields(cases()),'samples.sample_type')) %>%
response_all() Error in .gdc_get(sprintf("%s/%s", endpoint, "_mapping"), legacy = FALSE) : Service Unavailable (HTTP 503). count(resp) Error in count(resp) : object 'resp' not found res = cases() %>% facet("project.project_id") %>% aggregations() Error in .gdc_get(sprintf("%s/%s", endpoint, "_mapping"), legacy = FALSE) : Service Unavailable (HTTP 503). head(res) Error in head(res) : object 'res' not found GenomicDataCommons::status() Error in .gdc_get(paste(version, "status", sep = "/"), archive = "default") : Service Unavailable (HTTP 503). GenomicDataCommons::status() Error in .gdc_get(paste(version, "status", sep = "/"), archive = "default") : Service Unavailable (HTTP 503).
sessionInfo()
R version 3.5.2 (2018-12-20)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.1 LTS

Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1

locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=it_IT.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=it_IT.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=it_IT.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=it_IT.UTF-8 LC_IDENTIFICATION=C

attached base packages: [1] stats graphics grDevices utils datasets methods base

other attached packages: [1] GenomicDataCommons_1.6.0 magrittr_1.5

loaded via a namespace (and not attached): [1] Rcpp_1.0.0 compiler_3.5.2
[3] pillar_1.3.1 GenomeInfoDb_1.18.1
[5] XVector_0.22.0 bindr_0.1.1
[7] bitops_1.0-6 tools_3.5.2
[9] zlibbioc_1.28.0 jsonlite_1.6
[11] tibble_1.4.2 lattice_0.20-38
[13] pkgconfig_2.0.2 rlang_0.3.0.1
[15] Matrix_1.2-15 DelayedArray_0.8.0
[17] rstudioapi_0.8 curl_3.2
[19] yaml_2.2.0 parallel_3.5.2
[21] bindrcpp_0.2.2 GenomeInfoDbData_1.2.0
[23] xml2_1.2.0 dplyr_0.7.8
[25] httr_1.4.0 hms_0.4.2
[27] rappdirs_0.3.1 S4Vectors_0.20.1
[29] IRanges_2.16.0 stats4_3.5.2
[31] grid_3.5.2 tidyselect_0.2.5
[33] glue_1.3.0 Biobase_2.42.0
[35] R6_2.3.0 BiocParallel_1.16.2
[37] readr_1.3.0 purrr_0.2.5
[39] matrixStats_0.54.0 BiocGenerics_0.28.0
[41] GenomicRanges_1.34.0 assertthat_0.2.0
[43] SummarizedExperiment_1.12.0 RCurl_1.95-4.11
[45] lazyeval_0.2.1 crayon_1.3.4

Bioconductor / GenomicDataCommons

Error 503 #67

serarch case id

cerca caampi