when I use function importRankings
motifRankings <- importRankings("G:/hg38_500bp_up_100bp_down_full_tx_v10_clust.genes_vs_motifs.rankings.feather")
import feather file meet error
Error in .Call(_arrow_ipc___feather___Reader__schema, reader):
NULL value cannot be used as a symbol address
Feather File download from ：https://resources.aertslab.org/cistarget/databases/homo_sapiens/hg38/refseq_r80/mc_v10_clust/gene_based/
I suppose this error is raised up by arrow::FeatherReader$create function, however, I have no idea how to fix it.
sessionInfo()
R version 4.4.0 (2024-04-24 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 26100)
Matrix products: default
locale:
[1] LC_COLLATE=Chinese (Simplified)_China.utf8
[2] LC_CTYPE=Chinese (Simplified)_China.utf8
[3] LC_MONETARY=Chinese (Simplified)_China.utf8
[4] LC_NUMERIC=C
[5] LC_TIME=Chinese (Simplified)_China.utf8
time zone: Etc/GMT-8
tzcode source: internal
attached base packages:
[1] stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] arrow_19.0.1.1 scCustomize_3.0.0 RcisTarget_1.24.0
[4] SingleCellExperiment_1.26.0 SummarizedExperiment_1.34.0 Biobase_2.64.0
[7] GenomicRanges_1.56.1 GenomeInfoDb_1.40.1 IRanges_2.38.0
[10] S4Vectors_0.42.0 BiocGenerics_0.50.0 MatrixGenerics_1.16.0
[13] matrixStats_1.3.0 dplyr_1.1.4 ggplot2_3.5.1
[16] Seurat_5.1.0 SeuratObject_5.0.2 sp_2.1-4
[19] SCENIC_1.3.1 SCopeLoomR_0.13.0
loaded via a namespace (and not attached):
[1] fs_1.6.4 spatstat.sparse_3.1-0 devtools_2.4.5
[4] lubridate_1.9.3 httr_1.4.7 RColorBrewer_1.1-3
[7] backports_1.5.0 profvis_0.3.8 tools_4.4.0
[10] sctransform_0.4.1 utf8_1.2.4 R6_2.5.1
[13] lazyeval_0.2.2 uwot_0.2.2 urlchecker_1.0.1
[16] withr_3.0.0 gridExtra_2.3 progressr_0.14.0
[19] cli_3.6.2 spatstat.explore_3.3-1 fastDummies_1.7.3
[22] spatstat.data_3.1-2 ggridges_0.5.6 pbapply_1.7-2
[25] foreign_0.8-86 R.utils_2.12.3 parallelly_1.37.1
[28] sessioninfo_1.2.2 rstudioapi_0.16.0 RSQLite_2.3.7
[31] generics_0.1.3 shape_1.4.6.1 ica_1.0-3
[34] spatstat.random_3.3-1 Matrix_1.7-0 ggbeeswarm_0.7.2
[37] fansi_1.0.6 abind_1.4-5 R.methodsS3_1.8.2
[40] lifecycle_1.0.4 snakecase_0.11.1 SparseArray_1.4.8
[43] Rtsne_0.17 paletteer_1.6.0 grid_4.4.0
[46] blob_1.2.4 promises_1.3.0 crayon_1.5.2
[49] miniUI_0.1.1.1 lattice_0.22-6 cowplot_1.1.3
[52] annotate_1.82.0 KEGGREST_1.44.0 knitr_1.47
[55] pillar_1.9.0 future.apply_1.11.2 codetools_0.2-20
[58] leiden_0.4.3.1 glue_1.7.0 spatstat.univar_3.0-0
[61] data.table_1.15.4 remotes_2.5.0 vctrs_0.6.5
[64] png_0.1-8 spam_2.10-0 gtable_0.3.5
[67] assertthat_0.2.1 rematch2_2.1.2 cachem_1.1.0
[70] xfun_0.44 S4Arrays_1.4.1 mime_0.12
[73] survival_3.5-8 ellipsis_0.3.2 fitdistrplus_1.2-1
[76] ROCR_1.0-11 nlme_3.1-164 usethis_2.2.3
[79] bit64_4.0.5 RcppAnnoy_0.0.22 rprojroot_2.0.4
[82] irlba_2.3.5.1 rpart_4.1.23 vipor_0.4.7
[85] KernSmooth_2.23-22 colorspace_2.1-0 DBI_1.2.3
[88] Hmisc_5.1-3 nnet_7.3-19 ggrastr_1.0.2
[91] tidyselect_1.2.1 processx_3.8.4 bit_4.0.5
[94] compiler_4.4.0 curl_5.2.1 AUCell_1.26.0
[97] graph_1.82.0 htmlTable_2.4.3 hdf5r_1.3.12
[100] desc_1.4.3 DelayedArray_0.30.1 plotly_4.10.4
[103] checkmate_2.3.1 scales_1.3.0 lmtest_0.9-40
[106] dior_0.1.5 callr_3.7.6 stringr_1.5.1
[109] digest_0.6.35 goftest_1.2-3 spatstat.utils_3.0-5
[112] rmarkdown_2.27 XVector_0.44.0 base64enc_0.1-3
[115] htmltools_0.5.8.1 pkgconfig_2.0.3 sparseMatrixStats_1.16.0
[118] fastmap_1.2.0 rlang_1.1.4 GlobalOptions_0.1.2
[121] htmlwidgets_1.6.4 UCSC.utils_1.0.0 shiny_1.8.1.1
[124] DelayedMatrixStats_1.26.0 zoo_1.8-12 jsonlite_1.8.8
[127] R.oo_1.26.0 magrittr_2.0.3 Formula_1.2-5
[130] GenomeInfoDbData_1.2.12 dotCall64_1.1-1 patchwork_1.2.0
[133] sceasy_0.0.7 munsell_0.5.1 Rcpp_1.0.12
[136] reticulate_1.38.0 stringi_1.8.4 zlibbioc_1.50.0
[139] MASS_7.3-60.2 plyr_1.8.9 pkgbuild_1.4.4
[142] parallel_4.4.0 listenv_0.9.1 ggrepel_0.9.5
[145] forcats_1.0.0 deldir_2.0-4 Biostrings_2.72.1
[148] splines_4.4.0 tensor_1.5 circlize_0.4.16
[151] ps_1.7.6 igraph_2.0.3 spatstat.geom_3.3-2
[154] RcppHNSW_0.6.0 reshape2_1.4.4 pkgload_1.3.4
[157] XML_3.99-0.17 evaluate_0.24.0 BiocManager_1.30.23
[160] ggprism_1.0.5 tzdb_0.4.0 httpuv_1.6.15
[163] RANN_2.6.1 tidyr_1.3.1 purrr_1.0.2
[166] polyclip_1.10-6 future_1.33.2 scattermore_1.2
[169] janitor_2.2.0 xtable_1.8-4 RSpectra_0.16-2
[172] later_1.3.2 viridisLite_0.4.2 tibble_3.2.1
[175] memoise_2.0.1 beeswarm_0.4.0 AnnotationDbi_1.66.0
[178] cluster_2.1.6 timechange_0.3.0 globals_0.16.3
[181] GSEABase_1.66.0
packageVersion("RcisTarget")
[1] ‘1.24.0’
when I use function importRankings
motifRankings <- importRankings("G:/hg38_500bp_up_100bp_down_full_tx_v10_clust.genes_vs_motifs.rankings.feather")
import feather file meet error
Error in .Call(
_arrow_ipc___feather___Reader__schema, reader):NULL value cannot be used as a symbol address
Feather File download from ：https://resources.aertslab.org/cistarget/databases/homo_sapiens/hg38/refseq_r80/mc_v10_clust/gene_based/
I suppose this error is raised up by arrow::FeatherReader$create function, however, I have no idea how to fix it.
Matrix products: default
locale:
[1] LC_COLLATE=Chinese (Simplified)_China.utf8
[2] LC_CTYPE=Chinese (Simplified)_China.utf8
[3] LC_MONETARY=Chinese (Simplified)_China.utf8
[4] LC_NUMERIC=C
[5] LC_TIME=Chinese (Simplified)_China.utf8
time zone: Etc/GMT-8
tzcode source: internal
attached base packages:
[1] stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] arrow_19.0.1.1 scCustomize_3.0.0 RcisTarget_1.24.0
[4] SingleCellExperiment_1.26.0 SummarizedExperiment_1.34.0 Biobase_2.64.0
[7] GenomicRanges_1.56.1 GenomeInfoDb_1.40.1 IRanges_2.38.0
[10] S4Vectors_0.42.0 BiocGenerics_0.50.0 MatrixGenerics_1.16.0
[13] matrixStats_1.3.0 dplyr_1.1.4 ggplot2_3.5.1
[16] Seurat_5.1.0 SeuratObject_5.0.2 sp_2.1-4
[19] SCENIC_1.3.1 SCopeLoomR_0.13.0
loaded via a namespace (and not attached):
[1] fs_1.6.4 spatstat.sparse_3.1-0 devtools_2.4.5
[4] lubridate_1.9.3 httr_1.4.7 RColorBrewer_1.1-3
[7] backports_1.5.0 profvis_0.3.8 tools_4.4.0
[10] sctransform_0.4.1 utf8_1.2.4 R6_2.5.1
[13] lazyeval_0.2.2 uwot_0.2.2 urlchecker_1.0.1
[16] withr_3.0.0 gridExtra_2.3 progressr_0.14.0
[19] cli_3.6.2 spatstat.explore_3.3-1 fastDummies_1.7.3
[22] spatstat.data_3.1-2 ggridges_0.5.6 pbapply_1.7-2
[25] foreign_0.8-86 R.utils_2.12.3 parallelly_1.37.1
[28] sessioninfo_1.2.2 rstudioapi_0.16.0 RSQLite_2.3.7
[31] generics_0.1.3 shape_1.4.6.1 ica_1.0-3
[34] spatstat.random_3.3-1 Matrix_1.7-0 ggbeeswarm_0.7.2
[37] fansi_1.0.6 abind_1.4-5 R.methodsS3_1.8.2
[40] lifecycle_1.0.4 snakecase_0.11.1 SparseArray_1.4.8
[43] Rtsne_0.17 paletteer_1.6.0 grid_4.4.0
[46] blob_1.2.4 promises_1.3.0 crayon_1.5.2
[49] miniUI_0.1.1.1 lattice_0.22-6 cowplot_1.1.3
[52] annotate_1.82.0 KEGGREST_1.44.0 knitr_1.47
[55] pillar_1.9.0 future.apply_1.11.2 codetools_0.2-20
[58] leiden_0.4.3.1 glue_1.7.0 spatstat.univar_3.0-0
[61] data.table_1.15.4 remotes_2.5.0 vctrs_0.6.5
[64] png_0.1-8 spam_2.10-0 gtable_0.3.5
[67] assertthat_0.2.1 rematch2_2.1.2 cachem_1.1.0
[70] xfun_0.44 S4Arrays_1.4.1 mime_0.12
[73] survival_3.5-8 ellipsis_0.3.2 fitdistrplus_1.2-1
[76] ROCR_1.0-11 nlme_3.1-164 usethis_2.2.3
[79] bit64_4.0.5 RcppAnnoy_0.0.22 rprojroot_2.0.4
[82] irlba_2.3.5.1 rpart_4.1.23 vipor_0.4.7
[85] KernSmooth_2.23-22 colorspace_2.1-0 DBI_1.2.3
[88] Hmisc_5.1-3 nnet_7.3-19 ggrastr_1.0.2
[91] tidyselect_1.2.1 processx_3.8.4 bit_4.0.5
[94] compiler_4.4.0 curl_5.2.1 AUCell_1.26.0
[97] graph_1.82.0 htmlTable_2.4.3 hdf5r_1.3.12
[100] desc_1.4.3 DelayedArray_0.30.1 plotly_4.10.4
[103] checkmate_2.3.1 scales_1.3.0 lmtest_0.9-40
[106] dior_0.1.5 callr_3.7.6 stringr_1.5.1
[109] digest_0.6.35 goftest_1.2-3 spatstat.utils_3.0-5
[112] rmarkdown_2.27 XVector_0.44.0 base64enc_0.1-3
[115] htmltools_0.5.8.1 pkgconfig_2.0.3 sparseMatrixStats_1.16.0
[118] fastmap_1.2.0 rlang_1.1.4 GlobalOptions_0.1.2
[121] htmlwidgets_1.6.4 UCSC.utils_1.0.0 shiny_1.8.1.1
[124] DelayedMatrixStats_1.26.0 zoo_1.8-12 jsonlite_1.8.8
[127] R.oo_1.26.0 magrittr_2.0.3 Formula_1.2-5
[130] GenomeInfoDbData_1.2.12 dotCall64_1.1-1 patchwork_1.2.0
[133] sceasy_0.0.7 munsell_0.5.1 Rcpp_1.0.12
[136] reticulate_1.38.0 stringi_1.8.4 zlibbioc_1.50.0
[139] MASS_7.3-60.2 plyr_1.8.9 pkgbuild_1.4.4
[142] parallel_4.4.0 listenv_0.9.1 ggrepel_0.9.5
[145] forcats_1.0.0 deldir_2.0-4 Biostrings_2.72.1
[148] splines_4.4.0 tensor_1.5 circlize_0.4.16
[151] ps_1.7.6 igraph_2.0.3 spatstat.geom_3.3-2
[154] RcppHNSW_0.6.0 reshape2_1.4.4 pkgload_1.3.4
[157] XML_3.99-0.17 evaluate_0.24.0 BiocManager_1.30.23
[160] ggprism_1.0.5 tzdb_0.4.0 httpuv_1.6.15
[163] RANN_2.6.1 tidyr_1.3.1 purrr_1.0.2
[166] polyclip_1.10-6 future_1.33.2 scattermore_1.2
[169] janitor_2.2.0 xtable_1.8-4 RSpectra_0.16-2
[172] later_1.3.2 viridisLite_0.4.2 tibble_3.2.1
[175] memoise_2.0.1 beeswarm_0.4.0 AnnotationDbi_1.66.0
[178] cluster_2.1.6 timechange_0.3.0 globals_0.16.3
[181] GSEABase_1.66.0