DESeq2 won't load
1
0
Entering edit mode
Naomi • 0
@dd97877a
Last seen 12 months ago
United States

I just updated R, RStudio and Bioconductor (sessionInfo at the end). I reinstalled DESeq2 with no error messages. But I cannot load it.

Thanks.

library(DESeq2)
Error: package or namespace load failed for ‘DESeq2’ in dyn.load(file, DLLpath = DLLpath, ...):
 unable to load shared object '/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/DESeq2/libs/DESeq2.so':
  dlopen(/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/DESeq2/libs/DESeq2.so, 6): Symbol not found: __ZNKSt3__115basic_stringbufIcNS_11char_traitsIcEENS_9allocatorIcEEE3strEv
  Referenced from: /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/DESeq2/libs/DESeq2.so (which was built for Mac OS X 13.0)
  Expected in: /usr/lib/libc++.1.dylib


sessionInfo()
R version 4.2.2 (2022-10-31)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Big Sur 11.6.5

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] stats4    stats     graphics  grDevices utils    
[6] datasets  methods   base     

other attached packages:
[1] SummarizedExperiment_1.28.0 Biobase_2.58.0             
[3] MatrixGenerics_1.10.0       matrixStats_0.63.0         
[5] GenomicRanges_1.50.2        GenomeInfoDb_1.34.9        
[7] IRanges_2.32.0              S4Vectors_0.36.2           
[9] BiocGenerics_0.44.0        

loaded via a namespace (and not attached):
 [1] KEGGREST_1.38.0        locfit_1.5-9.7        
 [3] lattice_0.20-45        colorspace_2.1-0      
 [5] vctrs_0.5.2            utf8_1.2.3            
 [7] blob_1.2.3             XML_3.99-0.13         
 [9] rlang_1.0.6            pillar_1.8.1          
[11] glue_1.6.2             DBI_1.1.3             
[13] BiocParallel_1.32.5    bit64_4.0.5           
[15] RColorBrewer_1.1-3     GenomeInfoDbData_1.2.9
[17] lifecycle_1.0.3        zlibbioc_1.44.0       
[19] Biostrings_2.66.0      munsell_0.5.0         
[21] gtable_0.3.1           codetools_0.2-19      
[23] memoise_2.0.1          geneplotter_1.76.0    
[25] fastmap_1.1.1          parallel_4.2.2        
[27] AnnotationDbi_1.60.0   fansi_1.0.4           
[29] Rcpp_1.0.10            xtable_1.8-4          
[31] BiocManager_1.30.20    scales_1.2.1          
[33] cachem_1.0.7           DelayedArray_0.24.0   
[35] annotate_1.76.0        XVector_0.38.0        
[37] bit_4.0.5              ggplot2_3.4.1         
[39] png_0.1-8              grid_4.2.2            
[41] cli_3.6.0              tools_4.2.2           
[43] bitops_1.0-7           magrittr_2.0.3        
[45] RCurl_1.98-1.10        RSQLite_2.3.0         
[47] tibble_3.2.0           pkgconfig_2.0.3       
[49] crayon_1.5.2           Matrix_1.5-3          
[51] httr_1.4.5             R6_2.5.1              
[53] compiler_4.2.2        
DESeq2 load • 488 views
ADD COMMENT
0
Entering edit mode
@mikelove
Last seen 12 minutes ago
United States

The issue I believe is that it's built for OS X 13 and you are running 11. You can use an older version of R/DESeq2.

ADD COMMENT

Login before adding your answer.

Traffic: 964 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6