seandavi / GEOquery

The bridge between the NCBI Gene Expression Omnibus and Bioconductor
http://seandavi.github.io/GEOquery/
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I ran into a bug when I downloaded the dataset GSE225759 #144

Closed todaroroad closed 1 year ago

todaroroad commented 1 year ago

Describe the bug I ran into a bug when I downloaded the dataset GSE225759 To Reproduce

> GSEdata <- getGEO("GSE225759",GSEMatrix=T, AnnotGPL=FALSE)
Found 1 file(s)
GSE225759_series_matrix.txt.gz
Error in if (GSEMatrix & geotype == "GSE") { : 
  the condition has length > 1

Output of Session Info:

R version 4.2.1 (2022-06-23)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Ventura 13.4.1

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libRlapack.dylib

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] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] GEOquery_2.65.2     Biobase_2.56.0      BiocGenerics_0.42.0 devtools_2.4.5     
[5] usethis_2.2.1      

loaded via a namespace (and not attached):
 [1] tidyselect_1.2.0  remotes_2.4.2     purrr_1.0.1       vctrs_0.6.3      
 [5] generics_0.1.3    miniUI_0.1.1.1    htmltools_0.5.5   utf8_1.2.3       
 [9] rlang_1.1.1       pkgbuild_1.4.0    R.oo_1.25.0       urlchecker_1.0.1 
[13] later_1.3.1       pillar_1.9.0      R.utils_2.12.2    glue_1.6.2       
[17] withr_2.5.0       sessioninfo_1.2.2 lifecycle_1.0.3   stringr_1.5.0    
[21] R.methodsS3_1.8.2 htmlwidgets_1.6.2 memoise_2.0.1     callr_3.7.3      
[25] tzdb_0.4.0        fastmap_1.1.1     httpuv_1.6.11     ps_1.7.5         
[29] curl_5.0.1        fansi_1.0.4       Rcpp_1.0.10       xtable_1.8-4     
[33] readr_2.1.4       promises_1.2.0.1  limma_3.52.4      cachem_1.0.8     
[37] desc_1.4.2        pkgload_1.3.2     mime_0.12         fs_1.6.2         
[41] hms_1.1.3         digest_0.6.31     stringi_1.7.12    processx_3.8.1   
[45] dplyr_1.1.2       shiny_1.7.4       rprojroot_2.0.3   cli_3.6.1        
[49] tools_4.2.1       magrittr_2.0.3    tibble_3.2.1      profvis_0.3.8    
[53] crayon_1.5.2      tidyr_1.3.0       pkgconfig_2.0.3   ellipsis_0.3.2   
[57] data.table_1.14.8 xml2_1.3.4        prettyunits_1.1.1 rstudioapi_0.14  
[61] R6_2.5.1          compiler_4.2.1