Error in openSesame()

[RosyGH]

Hello,
I am trying to analyse my methylation DNA EPIC v 2.0 arrays with sesame.
I am using windows version of Sesame.

How to solve BiocParallel errors in SeSaMe ? I can't even run the examples successfully.

** Examples

in_dir <- system.file("extdata", "", package = "sesameData")
betas <- openSesame(in_dir)

Error: BiocParallel errors
  1 remote errors, element index: 1
  1 unevaluated and other errors
  first remote error:
Error in stopAndCache(title): 
| File idatSignature either not found or needs to be cached to be
| used in sesame.
| Please make sure you have updated ExperimentHub and try
| > sesameDataCache("idatSignature")
| or download all data
| > sesameDataCache()
| to retrieve and cache needed sesame data.
## or
IDATprefixes <- searchIDATprefixes(in_dir)

betas <- openSesame(IDATprefixes)

Error: BiocParallel errors
  1 remote errors, element index: 1
  1 unevaluated and other errors
  first remote error:
Error in stopAndCache(title): 
| File idatSignature either not found or needs to be cached to be
| used in sesame.
| Please make sure you have updated ExperimentHub and try
| > sesameDataCache("idatSignature")
| or download all data
| > sesameDataCache()
| to retrieve and cache needed sesame data.

[RosyGH]

sessionInfo()
R version 4.4.1 (2024-06-14 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 22631)

Matrix products: default

locale:
[1] LC_COLLATE=Chinese (Simplified)_China.utf8 LC_CTYPE=Chinese (Simplified)_China.utf8
[3] LC_MONETARY=Chinese (Simplified)_China.utf8 LC_NUMERIC=C
[5] LC_TIME=Chinese (Simplified)_China.utf8

time zone: Asia/Shanghai
tzcode source: internal

attached base packages:
[1] grid parallel stats4 stats graphics grDevices utils datasets methods
[10] base

other attached packages:
[1] readr_2.1.4 sesame_1.22.2
[3] sesameData_1.22.0 ExperimentHub_2.12.0
[5] AnnotationHub_3.12.0 BiocFileCache_2.12.0
[7] dbplyr_2.5.0 conumee2_2.1
[9] nullranges_1.10.0 RnBeads_2.22.0
[11] plyr_1.8.9 methylumi_2.50.0
[13] FDb.InfiniumMethylation.hg19_2.2.0 org.Hs.eg.db_3.17.0
[15] TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2 GenomicFeatures_1.56.0
[17] AnnotationDbi_1.66.0 reshape2_1.4.4
[19] scales_1.3.0 illuminaio_0.46.0
[21] limma_3.60.6 gridExtra_2.3
[23] gplots_3.2.0 ggplot2_3.5.1
[25] fields_16.3 viridisLite_0.4.2
[27] spam_2.11-0 ff_4.5.0
[29] bit_4.5.0 cluster_2.1.6
[31] MASS_7.3-61 minfi_1.50.0
[33] bumphunter_1.46.0 locfit_1.5-9.10
[35] iterators_1.0.14 foreach_1.5.2
[37] Biostrings_2.72.1 XVector_0.44.0
[39] SummarizedExperiment_1.34.0 Biobase_2.64.0
[41] MatrixGenerics_1.16.0 matrixStats_1.2.0
[43] GenomicRanges_1.56.2 GenomeInfoDb_1.40.1
[45] IRanges_2.38.1 S4Vectors_0.42.1
[47] BiocGenerics_0.50.0

loaded via a namespace (and not attached):
[1] splines_4.4.1 BiocIO_1.14.0 bitops_1.0-9
[4] filelock_1.0.3 tibble_3.2.1 preprocessCore_1.66.0
[7] XML_3.99-0.17 lifecycle_1.0.4 vroom_1.6.5
[10] lattice_0.22-6 base64_2.0.2 scrime_1.3.5
[13] magrittr_2.0.3 plotly_4.10.4 yaml_2.3.10
[16] doRNG_1.8.6 askpass_1.2.1 DBI_1.2.3
[19] RColorBrewer_1.1-3 maps_3.4.2 abind_1.4-8
[22] zlibbioc_1.50.0 quadprog_1.5-8 purrr_1.0.2
[25] RCurl_1.98-1.14 rappdirs_0.3.3 GenomeInfoDbData_1.2.12
[28] genefilter_1.86.0 annotate_1.82.0 DelayedMatrixStats_1.26.0
[31] codetools_0.2-20 DelayedArray_0.30.1 xml2_1.3.6
[34] DNAcopy_1.78.0 tidyselect_1.2.1 UCSC.utils_1.0.0
[37] beanplot_1.3.1 GenomicAlignments_1.40.0 jsonlite_1.8.9
[40] wheatmap_0.2.0 multtest_2.60.0 ggridges_0.5.6
[43] survival_3.7-0 tools_4.4.1 Rcpp_1.0.11
[46] glue_1.8.0 SparseArray_1.4.8 xfun_0.48
[49] dplyr_1.1.4 HDF5Array_1.32.1 withr_3.0.1
[52] BiocManager_1.30.22 fastmap_1.2.0 rhdf5filters_1.16.0
[55] fansi_1.0.6 openssl_2.2.2 caTools_1.18.3
[58] digest_0.6.37 R6_2.5.1 colorspace_2.1-1
[61] gtools_3.9.5 RSQLite_2.3.7 utf8_1.2.4
[64] tidyr_1.3.1 generics_0.1.3 data.table_1.16.2
[67] rtracklayer_1.64.0 InteractionSet_1.32.0 httr_1.4.7
[70] htmlwidgets_1.6.4 S4Arrays_1.4.1 pkgconfig_2.0.3
[73] gtable_0.3.5 blob_1.2.4 siggenes_1.78.0
[76] htmltools_0.5.8.1 dotCall64_1.2 plyranges_1.24.0
[79] png_0.1-8 knitr_1.48 rstudioapi_0.16.0
[82] tzdb_0.4.0 rjson_0.2.23 nlme_3.1-164
[85] curl_5.2.3 cachem_1.1.0 rhdf5_2.48.0
[88] stringr_1.5.1 BiocVersion_3.19.1 KernSmooth_2.23-24
[91] restfulr_0.0.15 GEOquery_2.72.0 pillar_1.9.0
[94] reshape_0.8.9 vctrs_0.6.5 xtable_1.8-4
[97] evaluate_1.0.1 cli_3.6.3 compiler_4.4.1
[100] Rsamtools_2.20.0 rlang_1.1.4 crayon_1.5.3
[103] rngtools_1.5.2 nor1mix_1.3-2 mclust_6.0.1
[106] stringi_1.8.4 BiocParallel_1.38.0 munsell_0.5.1
[109] lazyeval_0.2.2 Matrix_1.7-0 hms_1.1.3
[112] sparseMatrixStats_1.16.0 bit64_4.5.2 Rhdf5lib_1.26.0
[115] KEGGREST_1.44.1 statmod_1.5.0 highr_0.11
[118] memoise_2.0.1

[zwdzwd]

Have you tried caching sesameData as suggested by the error message?

[RosyGH]

  您好，我最近正在忙碌中，无法亲自回复您的邮件。我将在忙碌结束后，尽快给您回复。