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Error when run getHyperPathway #38

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tqh003 opened this issue Mar 14, 2023 · 1 comment
Open

Error when run getHyperPathway #38

tqh003 opened this issue Mar 14, 2023 · 1 comment

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@tqh003
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tqh003 commented Mar 14, 2023

Hi,
When I tried to run the pathway activity analysis using example data. I encountered a error as follow:

pathway.hyper.list <- lapply(colnames(n), function(i){
print(i)
tmp <- getHyperPathway(data = n, object = mt, cella_cellb = i, Org="Homo sapiens")
return(tmp)
})
Error in parse(text = elt) : :1:7: unexpected symbol
1: Using an
^

Does anyone has any idea what cause this error? Thanks in advance.

BTW, my sessioninfo is:
R version 3.6.3 (2020-02-29)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19045)
Matrix products: default
locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods
[7] base
other attached packages:
[1] stringi_1.7.8 forcats_0.5.2 dplyr_1.0.9 purrr_0.3.4
[5] readr_2.1.2 tidyr_1.2.0 tibble_3.1.8 ggplot2_3.3.6
[9] tidyverse_1.3.2 networkD3_0.4 stringr_1.4.1 cellcall_1.0.7

@tqh003
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tqh003 commented Mar 15, 2023

Interestingly, when I installed the cellcall in Ubuntu20.04 LTS and tried to run cellcall on the example data, everything worked
well. Is there anybody knows the possible reasons for the error in Windows 10?

BTW, my sessionInfo is as follow:
R version 4.2.2 Patched (2022-11-10 r83330)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04.6 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8
[4] LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C
[10] LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] cellcall_1.0.7

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