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enriquea / feseR

feseR: Combining feature selection methods for analyzing omics data
https://github.com/enriquea/feseR
GNU General Public License v2.0
15 stars 3 forks source link

Latest Version of feseR installation -- error(?) #7

Closed ravichas closed 4 years ago

ravichas commented 5 years ago

Enrique:

I am getting the following error message during FeseR installation. I am not sure what is going on? Can you please check this issue for me?

library(devtools) install_github("enriquea/feseR") Downloading GitHub repo enriquea/feseR@master enriquea-feseR-248642c/data/GSE48760.rda: truncated gzip input tar.exe: Error exit delayed from previous errors. Error: Does not appear to be an R package (no DESCRIPTION) In addition: Warning messages: 1: In utils::untar(tarfile, ...) : ‘tar.exe -xf "C:\Users\RAVICH~1\AppData\Local\Temp\7\RtmpY7duPo\file133838c724b3.tar.gz" -C "C:/Users/RAVICH~1/AppData/Local/Temp/7/RtmpY7duPo/remotes133873af50bf"’ returned error code 1 2: In system(cmd, intern = TRUE) : running command 'tar.exe -tf "C:\Users\RAVICH~1\AppData\Local\Temp\7\RtmpY7duPo\file133838c724b3.tar.gz"' had status 1

session_info()

  • Session info ------------------------------------------------------------ setting value
    version R version 3.6.0 (2019-04-26) os Windows 10 x64
    system x86_64, mingw32
    ui RStudio
    language (EN)
    collate English_United States.1252
    ctype English_United States.1252
    tz America/New_York
    date 2019-07-19

[1] C:/Users/ravichas/Documents/R/win-library/3.6 [2] C:/Program Files/R/R-3.6.0/library

enriquea commented 5 years ago

Working fine for me (see travis). Possibly related when trying to download this 'large' file enriquea-feseR-248642c/data/GSE48760.rda: truncated gzip input ??

My R session,

> library(devtools)
> install_github("enriquea/feseR", force = T)
Downloading GitHub repo enriquea/feseR@master

✔  checking for file ‘/private/var/folders/td/z21x97312qg8vwcjjxt25_lc0000gp/T/Rtmpp3VI4z/remotes758c47e02226/enriquea-feseR-248642c/DESCRIPTION’ ...
─  preparing ‘feseR’:
✔  checking DESCRIPTION meta-information ...
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
─  looking to see if a ‘data/datalist’ file should be added
─  building ‘feseR_0.2.0.tar.gz’ (5.2s)

* installing *source* package ‘feseR’ ...
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (feseR)
> library(feseR)
> sessionInfo()
R version 3.5.2 (2018-12-20)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Mojave 10.14.3

Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.5/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] feseR_0.2.0    usethis_1.5.0  devtools_2.0.2

loaded via a namespace (and not attached):
 [1] tidyselect_0.2.5    remotes_2.0.4       reshape2_1.4.3      purrr_0.3.0         splines_3.5.2      
 [6] lattice_0.20-38     colorspace_1.4-0    generics_0.0.2      testthat_2.1.0.9000 stats4_3.5.2       
[11] yaml_2.2.0          prodlim_2018.04.18  survival_2.43-3     rlang_0.4.0         pkgbuild_1.0.3     
[16] ModelMetrics_1.2.2  pillar_1.3.1        glue_1.3.0          withr_2.1.2         sessioninfo_1.1.1  
[21] foreach_1.4.4       plyr_1.8.4          stringr_1.3.1       lava_1.6.5          timeDate_3043.102  
[26] munsell_0.5.0       gtable_0.2.0        recipes_0.1.5       codetools_0.2-16    memoise_1.1.0      
[31] callr_3.2.0         ps_1.3.0            caret_6.0-84        curl_3.3            class_7.3-15       
[36] Rcpp_1.0.0          scales_1.0.0        backports_1.1.3     desc_1.2.0          pkgload_1.0.2      
[41] ipred_0.9-8         fs_1.2.7            ggplot2_3.1.0       digest_0.6.18       stringi_1.2.4      
[46] processx_3.3.0      dplyr_0.8.0.1       grid_3.5.2          rprojroot_1.3-2     cli_1.1.0          
[51] tools_3.5.2         magrittr_1.5        lazyeval_0.2.1      tibble_2.0.1        crayon_1.3.4       
[56] pkgconfig_2.0.2     MASS_7.3-51.1       Matrix_1.2-15       data.table_1.12.0   prettyunits_1.0.2  
[61] lubridate_1.7.4     gower_0.2.0         assertthat_0.2.0    rstudioapi_0.9.0    iterators_1.0.10   
[66] R6_2.3.0            rpart_4.1-13        nnet_7.3-12         nlme_3.1-137        compiler_3.5.2
enriquea commented 5 years ago

Hi @ravichas

Did you finally manage to install the package?

ravichas commented 5 years ago

Had to make an international trip and just came back. I will try and let you know. Thanks, Ravi