Please Help!
Hello, since the early September's release of DESeq2 and other libraries , I can not run the function DESeqDataSet, I get the error:
dds <- DESeqDataSet(se, design = ~ hour) #DESeqDataSet object
Error in checkSlotAssignment(object, name, value) :
assignment of an object of class “NULL” is not valid for slot ‘NAMES’ in an object of class “DESeqDataSet”; is(value, "characterORNULL") is not TRUE
I already tried re-installing DESeq2 and other packages.
sessionInfo() R version 3.4.1 (2017-06-30)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Red Hat Enterprise Linux Server release 6.6 (Santiago)
Matrix products: default
BLAS: /export/apps/bioconda/lib/R/lib/libRblas.so
LAPACK: /export/apps/bioconda/lib/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] stats4 parallel stats graphics grDevices utils datasets
[8] methods base
other attached packages:
[1] DESeq2_1.16.1 BiocInstaller_1.26.1
[3] biomaRt_2.32.1 BiocParallel_1.10.1
[5] GenomicAlignments_1.12.2 SummarizedExperiment_1.6.5
[7] DelayedArray_0.2.7 matrixStats_0.52.2
[9] GenomicFeatures_1.28.5 AnnotationDbi_1.38.2
[11] Biobase_2.36.2 Rsamtools_1.28.0
[13] Biostrings_2.44.2 XVector_0.16.0
[15] GenomicRanges_1.28.6 GenomeInfoDb_1.12.3
[17] IRanges_2.10.5 S4Vectors_0.14.7
[19] BiocGenerics_0.22.1
loaded via a namespace (and not attached):
[1] locfit_1.5-9.1 Rcpp_0.12.13 lattice_0.20-35
[4] digest_0.6.12 plyr_1.8.4 backports_1.1.1
[7] acepack_1.4.1 RSQLite_2.0 ggplot2_2.2.1
[10] zlibbioc_1.22.0 rlang_0.1.2 lazyeval_0.2.0
[13] data.table_1.10.4-1 annotate_1.54.0 blob_1.1.0
[16] rpart_4.1-11 Matrix_1.2-11 checkmate_1.8.4
[19] splines_3.4.1 geneplotter_1.54.0 stringr_1.2.0
[22] foreign_0.8-69 htmlwidgets_0.9 RCurl_1.95-4.8
[25] bit_1.1-12 munsell_0.4.3 compiler_3.4.1
[28] rtracklayer_1.36.5 pkgconfig_2.0.1 base64enc_0.1-3
[31] htmltools_0.3.6 nnet_7.3-12 tibble_1.3.4
[34] gridExtra_2.3 htmlTable_1.9 GenomeInfoDbData_0.99.0
[37] Hmisc_4.0-3 XML_3.98-1.7 bitops_1.0-6
[40] grid_3.4.1 xtable_1.8-2 gtable_0.2.0
[43] DBI_0.7 magrittr_1.5 scales_0.5.0
[46] stringi_1.1.5 genefilter_1.58.1 latticeExtra_0.6-28
[49] Formula_1.2-2 RColorBrewer_1.1-2 tools_3.4.1
[52] bit64_0.9-7 survival_2.41-3 colorspace_1.3-2
[55] cluster_2.0.6 memoise_1.1.0 knitr_1.17
