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List:       bioc-devel
Subject:    [Bioc-devel] atSNP graphic error on malbec1 and malbec2
From:       "Shin, Sunyoung" <Sunyoung.Shin () utdallas ! edu>
Date:       2020-02-24 21:07:06
Message-ID: F6492CB2-0D7B-4B3E-B8E5-D7E0E3CB701C () utdallas ! edu
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Dear all,

My package plotting function encounters an error on Bioconductor linux servers: \
malbec1 and malbec2. The error does not occur on my linux server. Are there anyone \
who have had similar experiences?

The plotting function is plotMotifMatch of atSNP Bioconductor. FYI, here is the \
session Information that I got from my server:

> print(sessionInfo())
R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)

Matrix products: default
BLAS:   /opt/ohpc/pub/libs/gnu7/R/3.6.1/lib64/R/lib/libRblas.so
LAPACK: /opt/ohpc/pub/libs/gnu7/R/3.6.1/lib64/R/lib/libRlapack.so

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

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

other attached packages:
[1] atSNP_1.3.2    devtools_2.2.1 usethis_1.5.1 

loaded via a namespace (and not attached):
 [1] bitops_1.0-6                matrixStats_0.55.0         
 [3] fs_1.3.1                    bit64_0.9-7                
 [5] httr_1.4.1                  rprojroot_1.3-2            
 [7] GenomeInfoDb_1.20.0         tools_3.6.1                
 [9] backports_1.1.5             R6_2.4.1                   
[11] rGADEM_2.32.0               seqLogo_1.50.0             
[13] DBI_1.1.0                   lazyeval_0.2.2             
[15] BiocGenerics_0.30.0         colorspace_1.4-1           
[17] ade4_1.7-15                 withr_2.1.2                
[19] motifStack_1.28.0           tidyselect_1.0.0           
[21] prettyunits_1.0.2           processx_3.4.1             
[23] grImport2_0.2-0             bit_1.1-15.2               
[25] curl_4.3                    compiler_3.6.1             
[27] cli_2.0.1                   Biobase_2.44.0             
[29] desc_1.2.0                  DelayedArray_0.10.0        
[31] rtracklayer_1.44.4          scales_1.1.0               
[33] callr_3.3.2                 rappdirs_0.3.1             
[35] digest_0.6.25               Rsamtools_2.0.3            
[37] XVector_0.24.0              base64enc_0.1-3            
[39] jpeg_0.1-8.1                pkgconfig_2.0.3            
[41] htmltools_0.4.0             sessioninfo_1.1.1          
[43] dbplyr_1.4.2                BSgenome_1.52.0            
[45] htmlwidgets_1.5.1           rlang_0.4.4                
[47] RSQLite_2.2.0               BiocParallel_1.18.1        
[49] dplyr_0.8.4                 RCurl_1.98-1.1             
[51] magrittr_1.5                GenomeInfoDbData_1.2.1     
[53] Matrix_1.2-17               Rcpp_1.0.3                 
[55] munsell_0.5.0               S4Vectors_0.22.1           
[57] fansi_0.4.1                 lifecycle_0.1.0            
[59] MASS_7.3-51.4               SummarizedExperiment_1.14.1
[61] zlibbioc_1.30.0             pkgbuild_1.0.6             
[63] BiocFileCache_1.8.0         grid_3.6.1                 
[65] blob_1.2.1                  parallel_3.6.1             
[67] crayon_1.3.4                lattice_0.20-38            
[69] Biostrings_2.52.0           ps_1.3.0                   
[71] pillar_1.4.3                MotIV_1.40.0               
[73] GenomicRanges_1.36.1        stats4_3.6.1               
[75] pkgload_1.0.2               XML_3.99-0.3               
[77] glue_1.3.1                  data.table_1.12.8          
[79] remotes_2.1.0               vctrs_0.2.3                
[81] png_0.1-7                   testthat_2.3.0             
[83] gtable_0.3.0                purrr_0.3.3                
[85] assertthat_0.2.1            ggplot2_3.2.1              
[87] tibble_2.1.3                GenomicAlignments_1.20.1   
[89] memoise_1.1.0               IRanges_2.18.3             
[91] ellipsis_0.3.0             



Best,
Sunyoung
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