rcorces
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millerkaplanlab
ZayaAyush
Error with addCombinedDims function: Error in f(init, x[[i]]) : number of rows of matrices must match (see arg 2) #1779
Attach your log file
ArchR-addIterativeLSI-6debc678dfc2f-Date-2022-12-20_Time-13-06-44.log
Describe the bug Error with addCombinedDims function: Error in f(init, x[[i]]) : number of rows of matrices must match (see arg 2)
To Reproduce
Expected behavior Expected dimensions to be added to project. They are of equal size.
Screenshots
Session Info
Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
Random number generation: RNG: L'Ecuyer-CMRG Normal: Inversion Sample: Rejection
locale: [1] LC_CTYPE=en_CA.UTF-8 LC_NUMERIC=C LC_TIME=en_CA.UTF-8 LC_COLLATE=en_CA.UTF-8 LC_MONETARY=en_CA.UTF-8 LC_MESSAGES=en_CA.UTF-8 LC_PAPER=en_CA.UTF-8
[8] LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_CA.UTF-8 LC_IDENTIFICATION=C
attached base packages: [1] parallel grid stats4 stats graphics grDevices utils datasets methods base
other attached packages: [1] nabor_0.5.0 Rsamtools_2.12.0 BSgenome.Mmusculus.UCSC.mm10_1.4.3 BSgenome_1.64.0 rtracklayer_1.56.1
[6] Biostrings_2.64.1 XVector_0.36.0 rhdf5_2.40.0 stringr_1.5.0 plyr_1.8.8
[11] magrittr_2.0.3 gtable_0.3.1 gtools_3.9.4 gridExtra_2.3 ArchR_1.0.2
[16] cluster_2.1.4 presto_1.0.0 data.table_1.14.6 Rcpp_1.0.9 colorspace_2.0-3
[21] scClustViz_1.3.11 shiny_1.7.3 SeuratObject_4.1.3 Seurat_4.3.0 scran_1.24.1
[26] scater_1.24.0 ggplot2_3.4.0 scuttle_1.6.3 DropletUtils_1.16.0 SingleCellExperiment_1.18.1
[31] SummarizedExperiment_1.26.1 MatrixGenerics_1.8.1 matrixStats_0.63.0 Matrix_1.5-1 org.Dr.eg.db_3.15.0
[36] biovizBase_1.44.0 Signac_1.9.0 ensembldb_2.20.2 AnnotationFilter_1.20.0 GenomicFeatures_1.48.4
[41] AnnotationDbi_1.58.0 Biobase_2.56.0 GenomicRanges_1.48.0 GenomeInfoDb_1.32.4 IRanges_2.32.0
[46] S4Vectors_0.36.1 AnnotationHub_3.4.0 BiocFileCache_2.4.0 dbplyr_2.2.1 BiocGenerics_0.44.0
loaded via a namespace (and not attached): [1] rsvd_1.0.5 Hmisc_4.7-2 ica_1.0-3 RcppRoll_0.3.0 ps_1.7.2 lmtest_0.9-40
[7] crayon_1.5.2 MASS_7.3-58 rhdf5filters_1.8.0 nlme_3.1-159 backports_1.4.1 rlang_1.0.6
[13] ROCR_1.0-11 fontawesome_0.4.0 irlba_2.3.5.1 callr_3.7.3 limma_3.54.0 filelock_1.0.2
[19] BiocParallel_1.30.4 rjson_0.2.21 bit64_4.0.5 harmony_0.1.1 glue_1.6.2 sctransform_0.3.5
[25] processx_3.8.0 vipor_0.4.5 spatstat.sparse_3.0-0 spatstat.geom_3.0-3 tidyselect_1.2.0 usethis_2.1.6
[31] fitdistrplus_1.1-8 XML_3.99-0.13 tidyr_1.2.1 zoo_1.8-11 GenomicAlignments_1.32.1 xtable_1.8-4
[37] cli_3.4.1 zlibbioc_1.42.0 rstudioapi_0.14 miniUI_0.1.1.1 sp_1.5-1 rhandsontable_0.3.8
[43] bslib_0.4.1 rpart_4.1.16 fastmatch_1.1-3 BiocSingular_1.12.0 xfun_0.35 pkgbuild_1.4.0
[49] KEGGREST_1.36.3 tibble_3.1.8 interactiveDisplayBase_1.34.0 ggrepel_0.9.2 listenv_0.8.0 png_0.1-8
[55] future_1.29.0 withr_2.5.0 bitops_1.0-7 dqrng_0.3.0 pillar_1.8.1 cachem_1.0.6
[61] fs_1.5.2 DelayedMatrixStats_1.18.2 vctrs_0.5.1 ellipsis_0.3.2 generics_0.1.3 devtools_2.4.5
[67] tools_4.2.1 foreign_0.8-82 beeswarm_0.4.0 munsell_0.5.0 DelayedArray_0.22.0 fastmap_1.1.0
[73] compiler_4.2.1 pkgload_1.3.2 abind_1.4-5 httpuv_1.6.6 sessioninfo_1.2.2 plotly_4.10.1
[79] GenomeInfoDbData_1.2.8 edgeR_3.38.4 lattice_0.20-45 deldir_1.0-6 utf8_1.2.2 later_1.3.0
[85] dplyr_1.0.10 jsonlite_1.8.4 scales_1.2.1 ScaledMatrix_1.4.1 pbapply_1.6-0 sparseMatrixStats_1.8.0
[91] lazyeval_0.2.2 promises_1.2.0.1 latticeExtra_0.6-30 R.utils_2.12.2 goftest_1.2-3 spatstat.utils_3.0-1
[97] reticulate_1.26 checkmate_2.1.0 cowplot_1.1.1 textshaping_0.3.6 statmod_1.4.37 Rtsne_0.16
[103] dichromat_2.0-0.1 uwot_0.1.14 igraph_1.3.5 HDF5Array_1.24.2 survival_3.4-0 rsconnect_0.8.28
[109] yaml_2.3.6 systemfonts_1.0.4 htmltools_0.5.4 memoise_2.0.1 VariantAnnotation_1.42.1 profvis_0.3.7
[115] BiocIO_1.6.0 locfit_1.5-9.6 viridisLite_0.4.1 digest_0.6.31 assertthat_0.2.1 mime_0.12
[121] commonmark_1.8.1 rappdirs_0.3.3 RSQLite_2.2.19 future.apply_1.10.0 remotes_2.4.2 urlchecker_1.0.1
[127] blob_1.2.3 R.oo_1.25.0 ragg_1.2.4 shinythemes_1.2.0 splines_4.2.1 Formula_1.2-4
[133] labeling_0.4.2 Rhdf5lib_1.18.2 Cairo_1.6-0 ProtGenerics_1.28.0 RCurl_1.98-1.9 hms_1.1.2
[139] base64enc_0.1-3 BiocManager_1.30.19 ggbeeswarm_0.6.0 nnet_7.3-17 sass_0.4.4 RANN_2.6.1
[145] fansi_1.0.3 parallelly_1.32.1 R6_2.5.1 ggridges_0.5.4 lifecycle_1.0.3 bluster_1.6.0
[151] curl_4.3.3 leiden_0.4.3 jquerylib_0.1.4 RcppAnnoy_0.0.20 RColorBrewer_1.1-3 spatstat.explore_3.0-5
[157] htmlwidgets_1.5.4 beachmat_2.12.0 polyclip_1.10-4 biomaRt_2.52.0 markdown_1.4 purrr_0.3.5
[163] globals_0.16.2 htmlTable_2.4.1 patchwork_1.1.2 spatstat.random_3.0-1 progressr_0.12.0 codetools_0.2-18
[169] metapod_1.4.0 prettyunits_1.1.1 R.methodsS3_1.8.2 DBI_1.1.3 tensor_1.5 httr_1.4.4
[175] KernSmooth_2.23-20 stringi_1.7.8 progress_1.2.2 reshape2_1.4.4 farver_2.1.1 viridis_0.6.2
[181] xml2_1.3.3 BiocNeighbors_1.14.0 restfulr_0.0.15 interp_1.1-3 scattermore_0.8 BiocVersion_3.15.2
[187] bit_4.0.5 jpeg_0.1-10 spatstat.data_3.0-0 pkgconfig_2.0.3 knitr_1.41
Additional context