royfrancis/pophelpershiny

Interactive interface for pophelper using shiny web framework.

pophelperShiny

pophelperShiny is an interactive shiny application to use the R package pophelper interactively. This is packaged as an R package to enable easy installation. See the project website for more details.

Disclaimer

This R package is offered free and without warranty of any kind, either expressed or implied. I will not be held liable to you for any damage arising out of the use, modification or inability to use this program. This R package can be used, redistributed and/or modified freely for non-commercial purposes subject to the original source being properly cited. Licensed under GPL-3. Please make sure you verify all your results.

Contact

If you have an comments, suggestions, corrections or ideas on ways to improve or extend this package, feel free to contact me. Submit an issue on the Github issues page.

2021 | Roy M Francis

pophelpershiny's Issues

pophelper shiny connection issue

Suddenly I am not able to launch pophelpershiny, when I try to do so I get an error page in my browser and my Rsession aborts.

Warning: Error in the file: cannot open the connection

Hello, I am running into the following error message. Any advice would be greatly appreciated, this looks like an awesome tool!

Thanks, Mike

runPophelper()

Listening on http://127.0.0.1:5996
[1] "No uploaded file(s)."
Running fn_getfilenames() ...
0.576 MB uploaded.
Warning in file(con, "r") :
'raw = FALSE' but '/tmp/RtmpWzWZlk/20200228123342826/harvester_input' is not a regular file
Warning in file(con, "r") :
cannot open file '/tmp/RtmpWzWZlk/20200228123342826/harvester_input': it is a directory
Warning: Error in file: cannot open the connection
124: file
123: readLines
122: pophelper:::checkQ
120: reactive:fn_getfilenames [/usr/local/lib/R/site-library/pophelperShiny/app/server.R#58]
104: fn_getfilenames
103: exprFunc [/usr/local/lib/R/site-library/pophelperShiny/app/server.R#116]
102: widgetFunc
101: func
88: origRenderFunc
87: renderFunc
83: origRenderFunc
82: output$table_basic
2: shiny::runApp
1: runPophelper

sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04.6 LTS

Matrix products: default
BLAS: /usr/lib/libblas/libblas.so.3.6.0
LAPACK: /usr/lib/lapack/liblapack.so.3.6.0

Random number generation:
RNG: Mersenne-Twister
Normal: Inversion
Sample: Rounding

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

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

other attached packages:
[1] pophelperShiny_2.1.0 shiny_1.4.0 pophelper_2.3.0
[4] magrittr_1.5 highcharter_0.7.0 ggplot2_3.2.1

loaded via a namespace (and not attached):
[1] xfun_0.12 zoo_1.8-7 tidyselect_1.0.0
[4] lpSolve_5.6.15 purrr_0.3.3 lattice_0.20-38
[7] colorspace_1.4-1 vctrs_0.2.3 generics_0.0.2
[10] viridisLite_0.3.0 miniUI_0.1.1.1 htmltools_0.4.0
[13] label.switching_1.8 yaml_2.2.1 rlang_0.4.4
[16] pillar_1.4.3 later_1.0.0 glue_1.3.1
[19] withr_2.1.2 RColorBrewer_1.1-2 TTR_0.23-6
[22] lifecycle_0.1.0 quantmod_0.4-15 stringr_1.4.0
[25] munsell_0.5.0 combinat_0.0-8 gtable_0.3.0
[28] htmlwidgets_1.5.1 colourpicker_1.0 fastmap_1.0.1
[31] crosstalk_1.0.0 httpuv_1.5.2 shinyWidgets_0.5.0
[34] curl_4.3 markdown_1.1 broom_0.5.4
[37] xts_0.12-0 Rcpp_1.0.3 xtable_1.8-4
[40] scales_1.1.0 backports_1.1.5 promises_1.1.0
[43] DT_0.12 writexl_1.2 jsonlite_1.6.1
[46] mime_0.9 gridExtra_2.3 digest_0.6.25
[49] stringi_1.4.6 rlist_0.4.6.1 dplyr_0.8.4
[52] grid_3.6.1 tools_3.6.1 shinythemes_1.1.2
[55] lazyeval_0.2.2 tibble_2.1.3 crayon_1.3.4
[58] tidyr_1.0.2 whisker_0.4 pkgconfig_2.0.3
[61] shinyAce_0.4.1 shinyBS_0.61 data.table_1.12.8
[64] lubridate_1.7.4 assertthat_0.2.1 R6_2.4.1
[67] igraph_1.2.4.2 nlme_3.1-142 compiler_3.6.1

Why the web app greyed out within few minutes of inactivity

Within only 1-2 min. if I leave the shiny app without any click it will be greyed out. Which force me to reload the data and start again.

Can I increase the time of waiting for me before going to sleep?

Warning: Error in grid.Call: polygon edge not found

Hi,
I have used yesterday pophelper shiny and it was working.
And today on the same dataset, it says "Warning: Error in grid.Call: polygon edge not found" and cannot plot the barplot.
Could you please help me ?
Thanks!!
my best,
Amandine

Connection Error

When uploading a zip file to the upload tab an error was returned. "Error: cannot open the connection". Not sure if that is on my end or the from the Gui's end.

package ‘pophelper’ is not available (for R version 3.6.1)

Hello I am installing pophelperShiny but i received by R this message "package ‘pophelper’ is not available (for R version 3.6.1)" but in the web page it seem that windows +R 3.6.1 are compatibles...Should I get back to 3.6?
Thank you!