Jonyyqn
commented
1 week ago I also get the same Error. Any solutions ?
> sessionInfo()
R version 4.4.1 (2024-06-14)
Platform: x86_64-conda-linux-gnu
Running under: CentOS Linux 7 (Core)
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
time zone: Asia/Shanghai
tzcode source: system (glibc)
attached base packages:
[1] stats4 stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] loupeR_1.1.2 Cottrazm_0.1.1 org.Hs.eg.db_3.19.1
[4] AnnotationDbi_1.66.0 Biobase_2.62.0 clusterProfiler_4.12.6
[7] tibble_3.2.1 ggrepel_0.9.6 Rfast_2.1.0
[10] RcppParallel_5.1.9 RcppZiggurat_0.1.6 Rcpp_1.0.13
[13] data.table_1.16.2 quadprog_1.5-8 cowplot_1.1.3
[16] scatterpie_0.2.4 openxlsx_4.2.7.1 reticulate_1.39.0
[19] assertthat_0.2.1 dendextend_1.18.1 phylogram_2.1.0
[22] infercnv_1.20.0 rtracklayer_1.64.0 GenomicRanges_1.56.2
[25] GenomeInfoDb_1.40.1 IRanges_2.38.1 S4Vectors_0.40.2
[28] readr_2.1.5 BiocGenerics_0.48.1 ggtree_3.12.0
[31] patchwork_1.3.0 RColorBrewer_1.1-3 stringr_1.5.1
[34] ggplot2_3.5.1 Matrix_1.7-0 dplyr_1.1.4
[37] magrittr_2.0.3 SeuratObject_4.1.4 Seurat_4.4.0
loaded via a namespace (and not attached):
[1] fs_1.6.4 matrixStats_1.4.1
[3] spatstat.sparse_3.1-0 bitops_1.0-9
[5] enrichplot_1.24.4 httr_1.4.7
[7] doParallel_1.0.17 tools_4.4.1
[9] sctransform_0.4.1 utf8_1.2.4
[11] R6_2.5.1 lazyeval_0.2.2
[13] uwot_0.2.2 withr_3.0.1
[15] sp_2.1-4 gridExtra_2.3
[17] parallelDist_0.2.6 progressr_0.14.0
[19] argparse_2.2.3 cli_3.6.3
[21] formatR_1.14 spatstat.explore_3.3-2
[23] sandwich_3.1-1 mvtnorm_1.3-1
[25] spatstat.data_3.1-2 ggridges_0.5.6
[27] pbapply_1.7-2 Rsamtools_2.20.0
[29] yulab.utils_0.1.7 gson_0.1.0
[31] R.utils_2.12.3 DOSE_3.30.5
[33] parallelly_1.38.0 limma_3.60.6
[35] RSQLite_2.3.7 generics_0.1.3
[37] gridGraphics_0.5-1 BiocIO_1.14.0
[39] gtools_3.9.5 ica_1.0-3
[41] spatstat.random_3.3-2 zip_2.3.1
[43] GO.db_3.19.1 futile.logger_1.4.3
[45] fansi_1.0.6 abind_1.4-8
[47] R.methodsS3_1.8.2 lifecycle_1.0.4
[49] multcomp_1.4-26 yaml_2.3.10
[51] edgeR_4.0.16 SummarizedExperiment_1.34.0
[53] qvalue_2.36.0 gplots_3.2.0
[55] SparseArray_1.4.8 Rtsne_0.17
[57] blob_1.2.4 grid_4.4.1
[59] promises_1.3.0 crayon_1.5.3
[61] miniUI_0.1.1.1 lattice_0.22-6
[63] KEGGREST_1.44.1 pillar_1.9.0
[65] fgsea_1.30.0 rjson_0.2.23
[67] future.apply_1.11.2 codetools_0.2-20
[69] fastmatch_1.1-4 leiden_0.4.3.1
[71] glue_1.8.0 ggfun_0.1.6
[73] spatstat.univar_3.0-1 vctrs_0.6.5
[75] png_0.1-8 treeio_1.28.0
[77] gtable_0.3.5 cachem_1.1.0
[79] S4Arrays_1.4.1 mime_0.12
[81] tidygraph_1.3.1 libcoin_1.0-10
[83] coda_0.19-4.1 survival_3.7-0
[85] SingleCellExperiment_1.26.0 iterators_1.0.14
[87] statmod_1.5.0 fitdistrplus_1.2-1
[89] TH.data_1.1-2 ROCR_1.0-11
[91] nlme_3.1-166 bit64_4.5.2
[93] RcppAnnoy_0.0.22 irlba_2.3.5.1
[95] KernSmooth_2.23-24 DBI_1.2.3
[97] colorspace_2.1-1 tidyselect_1.2.1
[99] bit_4.5.0 compiler_4.4.1
[101] curl_5.2.1 httr2_1.0.5
[103] hdf5r_1.3.11 DelayedArray_0.30.1
[105] plotly_4.10.4 shadowtext_0.1.4
[107] scales_1.3.0 caTools_1.18.3
[109] lmtest_0.9-40 rappdirs_0.3.3
[111] digest_0.6.37 goftest_1.2-3
[113] spatstat.utils_3.1-0 XVector_0.42.0
[115] htmltools_0.5.8.1 pkgconfig_2.0.3
[117] MatrixGenerics_1.14.0 fastmap_1.2.0
[119] rlang_1.1.4 htmlwidgets_1.6.4
[121] UCSC.utils_1.0.0 shiny_1.9.1
[123] farver_2.1.2 zoo_1.8-12
[125] jsonlite_1.8.9 BiocParallel_1.36.0
[127] R.oo_1.26.0 GOSemSim_2.30.2
[129] RCurl_1.98-1.16 modeltools_0.2-23
[131] GenomeInfoDbData_1.2.12 ggplotify_0.1.2
[133] munsell_0.5.1 ape_5.8
[135] viridis_0.6.5 stringi_1.8.4
[137] ggraph_2.2.1 zlibbioc_1.48.2
[139] MASS_7.3-61 plyr_1.8.9
[141] parallel_4.4.1 listenv_0.9.1
[143] deldir_2.0-4 graphlayouts_1.2.0
[145] Biostrings_2.72.1 splines_4.4.1
[147] tensor_1.5 hms_1.1.3
[149] locfit_1.5-9.10 igraph_2.0.3
[151] fastcluster_1.2.6 spatstat.geom_3.3-3
[153] reshape2_1.4.4 futile.options_1.0.1
[155] XML_3.99-0.17 lambda.r_1.2.4
[157] tzdb_0.4.0 phyclust_0.1-34
[159] foreach_1.5.2 tweenr_2.0.3
[161] httpuv_1.6.15 RANN_2.6.2
[163] tidyr_1.3.1 purrr_1.0.2
[165] polyclip_1.10-7 future_1.34.0
[167] scattermore_1.2 ggforce_0.4.2
[169] coin_1.4-3 xtable_1.8-4
[171] restfulr_0.0.15 tidytree_0.4.6
[173] later_1.3.2 viridisLite_0.4.2
[175] rjags_4-16 aplot_0.2.3
[177] memoise_2.0.1 GenomicAlignments_1.40.0
[179] cluster_2.1.6 globals_0.16.3
The file "infercnv.17_HMM_predHMMi6.rand_trees.hmm_mode-subclusters.observations_dendrogram.txt" disappeared, can you help me solve it?