___ .______ ______ __ __ .______ / \ | _ \ / || | | | | _ \ / ^ \ | |_) | | ,----'| |__| | | |_) | / /_\ \ | / | | | __ | | / / _____ \ | |\ \\___ | `----.| | | | | |\ \\___. /__/ \__\ | _| `._____| \______||__| |__| | _| `._____| Logging With ArchR! Start Time : 2023-12-05 20:55:34.679361 ------- ArchR Info ArchRThreads = 48 ArchRGenome = Hg38 ------- System Info Computer OS = unix ------- Session Info R version 4.3.1 (2023-06-16) Platform: x86_64-conda-linux-gnu (64-bit) Running under: CentOS Linux 7 (Core) Matrix products: default BLAS/LAPACK: /net/bmc-lab5/data/kellis/group/Benjamin/software/miniconda3/envs/scorch/lib/libopenblasp-r0.3.25.so; LAPACK version 3.11.0 Random number generation: RNG: L'Ecuyer-CMRG Normal: Inversion Sample: Rejection 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: America/New_York tzcode source: system (glibc) attached base packages: [1] stats4 grid stats graphics grDevices utils datasets [8] methods base other attached packages: [1] BSgenome.Hsapiens.UCSC.hg38_1.4.5 BSgenome_1.68.0 [3] rtracklayer_1.60.0 Biostrings_2.68.1 [5] XVector_0.40.0 rhdf5_2.44.0 [7] SummarizedExperiment_1.30.2 Biobase_2.60.0 [9] MatrixGenerics_1.12.2 Rcpp_1.0.11 [11] Matrix_1.6-3 GenomicRanges_1.52.0 [13] GenomeInfoDb_1.36.1 IRanges_2.34.1 [15] S4Vectors_0.38.1 BiocGenerics_0.46.0 [17] matrixStats_1.1.0 data.table_1.14.8 [19] stringr_1.5.1 plyr_1.8.9 [21] magrittr_2.0.3 ggplot2_3.4.4 [23] gtable_0.3.4 gtools_3.9.5 [25] gridExtra_2.3 ArchR_1.0.2 loaded via a namespace (and not attached): [1] rjson_0.2.21 lattice_0.22-5 rhdf5filters_1.12.1 [4] vctrs_0.6.5 tools_4.3.1 bitops_1.0-7 [7] generics_0.1.3 parallel_4.3.1 getopt_1.20.4 [10] tibble_3.2.1 fansi_1.0.5 pkgconfig_2.0.3 [13] lifecycle_1.0.4 GenomeInfoDbData_1.2.10 compiler_4.3.1 [16] Rsamtools_2.16.0 munsell_0.5.0 codetools_0.2-19 [19] RCurl_1.98-1.13 yaml_2.3.7 pillar_1.9.0 [22] crayon_1.5.2 BiocParallel_1.34.2 DelayedArray_0.26.6 [25] abind_1.4-5 tidyselect_1.2.0 stringi_1.8.2 [28] dplyr_1.1.4 restfulr_0.0.15 colorspace_2.1-0 [31] cli_3.6.1 S4Arrays_1.2.0 XML_3.99-0.15 [34] utf8_1.2.4 withr_2.5.2 scales_1.3.0 [37] BiocIO_1.10.0 rlang_1.1.2 glue_1.6.2 [40] optparse_1.7.3 R6_2.5.1 Rhdf5lib_1.22.0 [43] GenomicAlignments_1.36.0 zlibbioc_1.46.0 ------- Log Info 2023-12-05 20:55:34.702326 : createArrowFiles Input-Parameters, Class = list createArrowFiles Input-Parameters$inputFiles: length = 2 human_brain_3k "/net/bmc-lab4/data/kellis/users/benjames/10X/human_brain_3k/outs/atac_fragments.tsv.gz" pbmc_granulocyte_sorted_10k "/net/bmc-lab4/data/kellis/users/benjames/10X/pbmc_granulocyte_sorted_10k/outs/atac_fragments.tsv.gz" createArrowFiles Input-Parameters$sampleNames: length = 2 [1] "human_brain_3k" "pbmc_granulocyte_sorted_10k" createArrowFiles Input-Parameters$outputNames: length = 2 [1] "human_brain_3k" "pbmc_granulocyte_sorted_10k" createArrowFiles Input-Parameters$validBarcodes: length = 0 NULL createArrowFiles Input-Parameters$minTSS: length = 1 [1] 1 createArrowFiles Input-Parameters$minFrags: length = 1 [1] 1000 createArrowFiles Input-Parameters$maxFrags: length = 1 [1] 1e+05 createArrowFiles Input-Parameters$minFragSize: length = 1 [1] 10 createArrowFiles Input-Parameters$maxFragSize: length = 1 [1] 2000 createArrowFiles Input-Parameters$QCDir: length = 1 [1] "QualityControl" createArrowFiles Input-Parameters$nucLength: length = 1 [1] 147 createArrowFiles Input-Parameters$promoterRegion: length = 2 [1] 2000 100 createArrowFiles Input-Parameters$excludeChr: length = 2 [1] "chrM" "chrY" createArrowFiles Input-Parameters$nChunk: length = 1 [1] 5 createArrowFiles Input-Parameters$bcTag: length = 1 [1] "qname" createArrowFiles Input-Parameters$gsubExpression: length = 0 NULL createArrowFiles Input-Parameters$bamFlag: length = 0 NULL createArrowFiles Input-Parameters$offsetPlus: length = 1 [1] 4 createArrowFiles Input-Parameters$offsetMinus: length = 1 [1] -5 createArrowFiles Input-Parameters$addTileMat: length = 1 [1] TRUE createArrowFiles Input-Parameters$addGeneScoreMat: length = 1 [1] TRUE createArrowFiles Input-Parameters$force: length = 1 [1] TRUE createArrowFiles Input-Parameters$threads: length = 1 [1] 48 createArrowFiles Input-Parameters$parallelParam: length = 0 NULL createArrowFiles Input-Parameters$subThreading: length = 1 [1] TRUE createArrowFiles Input-Parameters$verbose: length = 1 [1] TRUE createArrowFiles Input-Parameters$cleanTmp: length = 1 [1] TRUE createArrowFiles Input-Parameters$logFile: length = 1 [1] "ArchRLogs/ArchR-createArrows-894d673ecf09-Date-2023-12-05_Time-20-55-34.673463.log" createArrowFiles Input-Parameters$filterFrags: length = 1 [1] 1000 createArrowFiles Input-Parameters$filterTSS: length = 1 [1] 1 2023-12-05 20:55:34.760712 : Cleaning Temporary Files 2023-12-05 20:55:34.764196 : Batch Execution w/ safelapply!, 0 mins elapsed. ########### 2023-12-05 20:55:34.791919 : Creating Arrow File pbmc_granulocyte_sorted_10k.arrow (pbmc_granulocyte_sorted_10k : 1 of 2) ########### 2023-12-05 20:55:34.793629 : validBC, Class = NULL validBC: length = 0 NULL ########### 2023-12-05 20:55:34.80183 : Creating Arrow File human_brain_3k.arrow (human_brain_3k : 2 of 2) ########### 2023-12-05 20:55:34.804382 : validBC, Class = NULL validBC: length = 0 NULL 2023-12-05 20:55:34.836884 : (pbmc_granulocyte_sorted_10k : 1 of 2) Checking if completed file exists! 2023-12-05 20:55:34.873358 : (human_brain_3k : 2 of 2) Determining Arrow Method to use! 2023-12-05 20:55:34.890742 : (human_brain_3k : 2 of 2) Reading In Fragments from inputFiles (readMethod = tabix), 0.002 mins elapsed. 2023-12-05 20:55:34.901412 : (human_brain_3k : 2 of 2) Tabix Bed To Temporary File, 0.002 mins elapsed. 2023-12-05 20:55:34.911925 : (pbmc_granulocyte_sorted_10k : 1 of 2) Arrow Exists! Overriding since force = TRUE!, 0.002 mins elapsed. 2023-12-05 20:55:34.914113 : (pbmc_granulocyte_sorted_10k : 1 of 2) Determining Arrow Method to use! 2023-12-05 20:55:34.927527 : (pbmc_granulocyte_sorted_10k : 1 of 2) Reading In Fragments from inputFiles (readMethod = tabix), 0.003 mins elapsed. 2023-12-05 20:55:34.936476 : (pbmc_granulocyte_sorted_10k : 1 of 2) Tabix Bed To Temporary File, 0.003 mins elapsed. 2023-12-05 20:55:35.09094 : tileChromSizes, Class = GRanges GRanges object with 120 ranges and 1 metadata column: 2023-12-05 20:55:35.100791 : tileChromSizes, Class = GRanges GRanges object with 120 ranges and 1 metadata column: seqnames ranges strand | chunkName | [1] chr1 1-49791284 * | chr1#chunk1 [2] chr1 49791285-99582568 * | chr1#chunk2 [3] chr1 99582569-149373853 * | chr1#chunk3 [4] chr1 149373854-199165137 * | chr1#chunk4 [5] chr1 199165138-248956422 * | chr1#chunk5 ... ... ... ... . ... [116] chrY 1-11445483 * | chrY#chunk116 [117] chrY 11445484-22890966 * | chrY#chunk117 [118] chrY 22890967-34336449 * | chrY#chunk118 [119] chrY 34336450-45781932 * | chrY#chunk119 [120] chrY 45781933-57227415 * | chrY#chunk120 ------- seqinfo: 24 sequences from an unspecified genome; no seqlengths seqnames ranges strand | chunkName | [1] chr1 1-49791284 * | chr1#chunk1 [2] chr1 49791285-99582568 * | chr1#chunk2 [3] chr1 99582569-149373853 * | chr1#chunk3 [4] chr1 149373854-199165137 * | chr1#chunk4 [5] chr1 199165138-248956422 * | chr1#chunk5 ... ... ... ... . ... [116] chrY 1-11445483 * | chrY#chunk116 [117] chrY 11445484-22890966 * | chrY#chunk117 [118] chrY 22890967-34336449 * | chrY#chunk118 [119] chrY 34336450-45781932 * | chrY#chunk119 [120] chrY 45781933-57227415 * | chrY#chunk120 ------- seqinfo: 24 sequences from an unspecified genome; no seqlengths 2023-12-05 20:56:08.090476 : (human_brain_3k : 2 of 2) .tabixToTmp Fragments-Chunk-(1 of 120)-chr1:1-49791284, Class = data.table 2023-12-05 20:56:08.090476 : (human_brain_3k : 2 of 2) .tabixToTmp Fragments-Chunk-(1 of 120)-chr1:1-49791284, Class = data.frame (human_brain_3k : 2 of 2) .tabixToTmp Fragments-Chunk-(1 of 120)-chr1:1-49791284: nRows = 4695170, nCols = 3 V2 V3 V4 1: 10067 10198 GATGAGGGTGACATGC-1 2: 10073 10303 TACGTACAGGAAGCTA-1 3: 10074 10186 AACCGCTCAGCACCAT-1 4: 10074 10192 CATATCGCACGAACAG-1 5: 10074 10192 GAGGGAGCATGGTTAT-1 6: 10091 10204 ATCACAATCCTCCTAA-1 2023-12-05 20:56:08.614481 : (human_brain_3k : 2 of 2) .tabixToTmp Barcodes-Chunk-(1 of 120)-chr1:1-49791284, Class = character (human_brain_3k : 2 of 2) .tabixToTmp Barcodes-Chunk-(1 of 120)-chr1:1-49791284: length = 155597 [1] "GATGAGGGTGACATGC-1" "TACGTACAGGAAGCTA-1" "AACCGCTCAGCACCAT-1" [4] "CATATCGCACGAACAG-1" "GAGGGAGCATGGTTAT-1" "ATCACAATCCTCCTAA-1" 2023-12-05 20:56:28.773509 : (pbmc_granulocyte_sorted_10k : 1 of 2) .tabixToTmp Fragments-Chunk-(1 of 120)-chr1:1-49791284, Class = data.table 2023-12-05 20:56:28.773509 : (pbmc_granulocyte_sorted_10k : 1 of 2) .tabixToTmp Fragments-Chunk-(1 of 120)-chr1:1-49791284, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) .tabixToTmp Fragments-Chunk-(1 of 120)-chr1:1-49791284: nRows = 8282850, nCols = 3 V2 V3 V4 1: 10013 10013 TTTGCGACACCCACAG-1 2: 10067 10198 ACGAATCTCATTTGCT-1 3: 10067 10478 TCAAGAACAGTAATAG-1 4: 10073 10191 AACCCGCAGGTAGCTT-1 5: 10073 10203 GGTTGCTCACTTCATC-1 6: 10074 10340 CGCATATAGGTTACGT-1 2023-12-05 20:56:29.246443 : (pbmc_granulocyte_sorted_10k : 1 of 2) .tabixToTmp Barcodes-Chunk-(1 of 120)-chr1:1-49791284, Class = character (pbmc_granulocyte_sorted_10k : 1 of 2) .tabixToTmp Barcodes-Chunk-(1 of 120)-chr1:1-49791284: length = 209642 [1] "TTTGCGACACCCACAG-1" "ACGAATCTCATTTGCT-1" "TCAAGAACAGTAATAG-1" [4] "AACCCGCAGGTAGCTT-1" "GGTTGCTCACTTCATC-1" "CGCATATAGGTTACGT-1" 2023-12-05 20:57:10.833322 : (human_brain_3k : 2 of 2) Reading TabixFile 41 Percent, 1.601 mins elapsed. 2023-12-05 20:57:38.860054 : (pbmc_granulocyte_sorted_10k : 1 of 2) Reading TabixFile 41 Percent, 2.068 mins elapsed. 2023-12-05 20:59:23.296301 : (human_brain_3k : 2 of 2) Reading TabixFile 82 Percent, 3.809 mins elapsed. 2023-12-05 21:00:16.072726 : (pbmc_granulocyte_sorted_10k : 1 of 2) Reading TabixFile 82 Percent, 4.688 mins elapsed. 2023-12-05 21:01:14.850729 : (human_brain_3k : 2 of 2) Parallel Hdf5 Linkage Temporary File, 5.668 mins elapsed. 2023-12-05 21:01:21.253038 : (human_brain_3k : 2 of 2) Successful creation of Temporary File, 5.775 mins elapsed. 2023-12-05 21:01:21.269545 : (human_brain_3k : 2 of 2) Creating ArrowFile From Temporary File, 5.775 mins elapsed. 2023-12-05 21:01:22.26761 : (human_brain_3k : 2 of 2) chunkChrNames, Class = data.frame (human_brain_3k : 2 of 2) chunkChrNames: nRows = 118, nCols = 1 chunkNames 1 chr1#chunk1 2 chr1#chunk2 3 chr1#chunk3 4 chr1#chunk4 5 chr1#chunk5 6 chr10#chunk46 2023-12-05 21:01:22.275916 : (human_brain_3k : 2 of 2) Counting Unique Barcodes From Temporary File, 5.792 mins elapsed. 2023-12-05 21:01:22.989599 : (pbmc_granulocyte_sorted_10k : 1 of 2) Parallel Hdf5 Linkage Temporary File, 5.804 mins elapsed. 2023-12-05 21:01:24.454061 : (pbmc_granulocyte_sorted_10k : 1 of 2) Successful creation of Temporary File, 5.828 mins elapsed. 2023-12-05 21:01:24.459314 : (pbmc_granulocyte_sorted_10k : 1 of 2) Creating ArrowFile From Temporary File, 5.828 mins elapsed. 2023-12-05 21:01:24.839333 : (pbmc_granulocyte_sorted_10k : 1 of 2) chunkChrNames, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) chunkChrNames: nRows = 118, nCols = 1 chunkNames 1 chr1#chunk1 2 chr1#chunk2 3 chr1#chunk3 4 chr1#chunk4 5 chr1#chunk5 6 chr10#chunk46 2023-12-05 21:01:24.847989 : (pbmc_granulocyte_sorted_10k : 1 of 2) Counting Unique Barcodes From Temporary File, 5.835 mins elapsed. 2023-12-05 21:01:59.947824 : (human_brain_3k : 2 of 2) BarcodeFrequencyTable, Class = data.table 2023-12-05 21:01:59.947824 : (human_brain_3k : 2 of 2) BarcodeFrequencyTable, Class = data.frame (human_brain_3k : 2 of 2) BarcodeFrequencyTable: nRows = 621196, nCols = 2 values.V1 V1 1: TGGAACAAGTCCTTCA-1 966212 2: AAGCTTGGTCAAGTGC-1 890132 3: CTCCAACTCTTAGTCT-1 837215 4: GTATTGCAGACAAGTG-1 728819 5: AGTCAAGAGGACCTTG-1 660797 6: AATCTCAAGAGGAGGA-1 625911 2023-12-05 21:01:59.976468 : (human_brain_3k : 2 of 2) BarcodesMinMaxFrags, Class = data.frame (human_brain_3k : 2 of 2) BarcodesMinMaxFrags: nRows = 3368, nCols = 1 bc 1 CCTAGTTGTCAATAGT-1 2 GGAACCACATCAGTAT-1 3 CAGTACCCACTGACCG-1 4 TGGCTATAGTTTGAGC-1 5 TCAAGTATCCGGTTGA-1 6 AATCCGTAGTTAGAGG-1 2023-12-05 21:02:01.054517 : (human_brain_3k : 2 of 2) Unique Chromosomes, Class = data.frame (human_brain_3k : 2 of 2) Unique Chromosomes: nRows = 24, nCols = 1 chr 1 chr1 2 chr2 3 chr3 4 chr4 5 chr5 6 chr6 2023-12-05 21:02:01.129858 : (human_brain_3k : 2 of 2) Adding Chromosome 1 of 24, 6.439 mins elapsed. 2023-12-05 21:02:01.155463 : (human_brain_3k : 2 of 2) Adding Chromosome 2 of 24, 6.44 mins elapsed. 2023-12-05 21:02:01.199808 : (human_brain_3k : 2 of 2) Adding Chromosome 3 of 24, 6.441 mins elapsed. 2023-12-05 21:02:01.237055 : (human_brain_3k : 2 of 2) Adding Chromosome 4 of 24, 6.441 mins elapsed. 2023-12-05 21:02:01.282963 : (human_brain_3k : 2 of 2) Adding Chromosome 5 of 24, 6.442 mins elapsed. 2023-12-05 21:02:01.315479 : (human_brain_3k : 2 of 2) Adding Chromosome 6 of 24, 6.443 mins elapsed. 2023-12-05 21:02:01.359533 : (human_brain_3k : 2 of 2) Adding Chromosome 7 of 24, 6.443 mins elapsed. 2023-12-05 21:02:01.391388 : (human_brain_3k : 2 of 2) Adding Chromosome 8 of 24, 6.444 mins elapsed. 2023-12-05 21:02:01.437875 : (human_brain_3k : 2 of 2) Adding Chromosome 9 of 24, 6.445 mins elapsed. 2023-12-05 21:02:01.470263 : (human_brain_3k : 2 of 2) Adding Chromosome 10 of 24, 6.445 mins elapsed. 2023-12-05 21:02:01.526076 : (human_brain_3k : 2 of 2) Adding Chromosome 11 of 24, 6.446 mins elapsed. 2023-12-05 21:02:01.571064 : (human_brain_3k : 2 of 2) Adding Chromosome 12 of 24, 6.447 mins elapsed. 2023-12-05 21:02:01.591811 : (human_brain_3k : 2 of 2) Adding Chromosome 13 of 24, 6.447 mins elapsed. 2023-12-05 21:02:01.635254 : (human_brain_3k : 2 of 2) Adding Chromosome 14 of 24, 6.448 mins elapsed. 2023-12-05 21:02:01.679323 : (human_brain_3k : 2 of 2) Adding Chromosome 15 of 24, 6.449 mins elapsed. 2023-12-05 21:02:01.729151 : (human_brain_3k : 2 of 2) Adding Chromosome 16 of 24, 6.449 mins elapsed. 2023-12-05 21:02:01.770039 : (human_brain_3k : 2 of 2) Adding Chromosome 17 of 24, 6.45 mins elapsed. 2023-12-05 21:02:01.807308 : (human_brain_3k : 2 of 2) Adding Chromosome 18 of 24, 6.451 mins elapsed. 2023-12-05 21:02:01.858243 : (human_brain_3k : 2 of 2) Adding Chromosome 19 of 24, 6.452 mins elapsed. 2023-12-05 21:02:01.894942 : (human_brain_3k : 2 of 2) Adding Chromosome 20 of 24, 6.452 mins elapsed. 2023-12-05 21:02:01.94471 : (human_brain_3k : 2 of 2) Adding Chromosome 21 of 24, 6.453 mins elapsed. 2023-12-05 21:02:01.981775 : (human_brain_3k : 2 of 2) Adding Chromosome 22 of 24, 6.454 mins elapsed. 2023-12-05 21:02:02.024566 : (human_brain_3k : 2 of 2) Adding Chromosome 23 of 24, 6.454 mins elapsed. 2023-12-05 21:02:02.061215 : (human_brain_3k : 2 of 2) Adding Chromosome 24 of 24, 6.455 mins elapsed. 2023-12-05 21:03:40.75505 : (pbmc_granulocyte_sorted_10k : 1 of 2) BarcodeFrequencyTable, Class = data.table 2023-12-05 21:03:40.75505 : (pbmc_granulocyte_sorted_10k : 1 of 2) BarcodeFrequencyTable, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) BarcodeFrequencyTable: nRows = 669442, nCols = 2 values.V1 V1 1: CGTTAAATCCACCCTG-1 784328 2: TCTAACCGTATTGTCC-1 617735 3: TTGCGTCTCGCCTAAG-1 360648 4: ATGGCTTAGGCTACAT-1 348864 5: TAGTAAGCAAGGTAAC-1 327886 6: TACCCGGCATAATCCG-1 313165 2023-12-05 21:03:40.82633 : (pbmc_granulocyte_sorted_10k : 1 of 2) BarcodesMinMaxFrags, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) BarcodesMinMaxFrags: nRows = 12222, nCols = 1 bc 1 GGAGTCTGTGAGCAAG-1 2 TTCATTCAGCCGCTTT-1 3 CAGCAAGCAGTAGGTG-1 4 TAGCTAGGTTTGGGTA-1 5 ACGAACAAGACACTTA-1 6 ATTTGCAAGCCGCAAC-1 2023-12-05 21:03:42.957419 : (pbmc_granulocyte_sorted_10k : 1 of 2) Unique Chromosomes, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) Unique Chromosomes: nRows = 24, nCols = 1 chr 1 chr1 2 chr2 3 chr3 4 chr4 5 chr5 6 chr6 2023-12-05 21:03:43.074707 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 1 of 24, 8.139 mins elapsed. 2023-12-05 21:03:43.14098 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 2 of 24, 8.14 mins elapsed. 2023-12-05 21:03:43.187167 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 3 of 24, 8.14 mins elapsed. 2023-12-05 21:03:43.269337 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 4 of 24, 8.142 mins elapsed. 2023-12-05 21:03:43.337049 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 5 of 24, 8.143 mins elapsed. 2023-12-05 21:03:43.387444 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 6 of 24, 8.144 mins elapsed. 2023-12-05 21:03:43.433098 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 7 of 24, 8.144 mins elapsed. 2023-12-05 21:03:43.470884 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 8 of 24, 8.145 mins elapsed. 2023-12-05 21:03:43.511567 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 9 of 24, 8.146 mins elapsed. 2023-12-05 21:03:43.563457 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 10 of 24, 8.147 mins elapsed. 2023-12-05 21:03:43.586086 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 11 of 24, 8.147 mins elapsed. 2023-12-05 21:03:43.643383 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 12 of 24, 8.148 mins elapsed. 2023-12-05 21:03:43.683039 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 13 of 24, 8.149 mins elapsed. 2023-12-05 21:03:43.725995 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 14 of 24, 8.149 mins elapsed. 2023-12-05 21:03:43.773422 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 15 of 24, 8.15 mins elapsed. 2023-12-05 21:03:43.810922 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 16 of 24, 8.151 mins elapsed. 2023-12-05 21:03:43.854129 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 17 of 24, 8.152 mins elapsed. 2023-12-05 21:03:43.901246 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 18 of 24, 8.152 mins elapsed. 2023-12-05 21:03:43.955175 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 19 of 24, 8.153 mins elapsed. 2023-12-05 21:03:43.985666 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 20 of 24, 8.154 mins elapsed. 2023-12-05 21:03:44.037748 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 21 of 24, 8.155 mins elapsed. 2023-12-05 21:03:44.082794 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 22 of 24, 8.155 mins elapsed. 2023-12-05 21:03:44.119498 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 23 of 24, 8.156 mins elapsed. 2023-12-05 21:03:44.162496 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Chromosome 24 of 24, 8.157 mins elapsed. 2023-12-05 21:03:44.552235 : (human_brain_3k : 2 of 2) .tmpToArrow Fragments-Chr-(1 of 24)-chr1, Class = IRanges (human_brain_3k : 2 of 2) .tmpToArrow Fragments-Chr-(1 of 24)-chr1: length = 8012885 IRanges object with 6 ranges and 1 metadata column: start end width | RG | [1] 10158 10180 23 | CCTAGTTGTCAATAGT-1 [2] 601790 601841 52 | CCTAGTTGTCAATAGT-1 [3] 787699 788071 373 | CCTAGTTGTCAATAGT-1 [4] 822019 822327 309 | CCTAGTTGTCAATAGT-1 [5] 850520 850783 264 | CCTAGTTGTCAATAGT-1 [6] 929730 930178 449 | CCTAGTTGTCAATAGT-1 2023-12-05 21:03:44.573644 : (human_brain_3k : 2 of 2) .tmpToArrow Barcodes-Chr-(1 of 24)-chr1, Class = data.frame (human_brain_3k : 2 of 2) .tmpToArrow Barcodes-Chr-(1 of 24)-chr1: nRows = 3368, nCols = 1 bc 1 CCTAGTTGTCAATAGT-1 2 GGAACCACATCAGTAT-1 3 CAGTACCCACTGACCG-1 4 TGGCTATAGTTTGAGC-1 5 TCAAGTATCCGGTTGA-1 6 AATCCGTAGTTAGAGG-1 2023-12-05 21:04:02.869051 : (human_brain_3k : 2 of 2) Parallel Hdf5 Linkage Arrow File, 8.468 mins elapsed. 2023-12-05 21:04:08.748583 : (human_brain_3k : 2 of 2) Successful creation of Arrow File, 8.566 mins elapsed. 2023-12-05 21:04:22.772679 : (human_brain_3k : 2 of 2) Adding Fragment Summary, 8.8 mins elapsed. 2023-12-05 21:06:31.633442 : (human_brain_3k : 2 of 2) Plotting Fragment Size Distribution, 10.948 mins elapsed. 2023-12-05 21:06:32.166601 : (pbmc_granulocyte_sorted_10k : 1 of 2) .tmpToArrow Fragments-Chr-(1 of 24)-chr1, Class = IRanges (pbmc_granulocyte_sorted_10k : 1 of 2) .tmpToArrow Fragments-Chr-(1 of 24)-chr1: length = 20886882 IRanges object with 6 ranges and 1 metadata column: start end width | RG | [1] 10158 10210 53 | GGAGTCTGTGAGCAAG-1 [2] 66133 66173 41 | GGAGTCTGTGAGCAAG-1 [3] 181362 181521 160 | GGAGTCTGTGAGCAAG-1 [4] 191451 191542 92 | GGAGTCTGTGAGCAAG-1 [5] 607329 607361 33 | GGAGTCTGTGAGCAAG-1 [6] 778248 778403 156 | GGAGTCTGTGAGCAAG-1 2023-12-05 21:06:32.181053 : (pbmc_granulocyte_sorted_10k : 1 of 2) .tmpToArrow Barcodes-Chr-(1 of 24)-chr1, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) .tmpToArrow Barcodes-Chr-(1 of 24)-chr1: nRows = 12222, nCols = 1 bc 1 GGAGTCTGTGAGCAAG-1 2 TTCATTCAGCCGCTTT-1 3 CAGCAAGCAGTAGGTG-1 4 TAGCTAGGTTTGGGTA-1 5 ACGAACAAGACACTTA-1 6 ATTTGCAAGCCGCAAC-1 2023-12-05 21:06:33.142473 : (human_brain_3k : 2 of 2) Computing TSS Enrichment Scores, 10.973 mins elapsed. 2023-12-05 21:06:34.096483 : (pbmc_granulocyte_sorted_10k : 1 of 2) Parallel Hdf5 Linkage Arrow File, 10.989 mins elapsed. 2023-12-05 21:06:35.13371 : (pbmc_granulocyte_sorted_10k : 1 of 2) Successful creation of Arrow File, 11.006 mins elapsed. 2023-12-05 21:06:38.704624 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Fragment Summary, 11.066 mins elapsed. 2023-12-05 21:07:12.510258 : (human_brain_3k : 2 of 2) Computed TSS Scores!, 0.656 mins elapsed. 2023-12-05 21:07:12.525671 : (human_brain_3k : 2 of 2) CellStats : Number of Cells Pass Filter = 3360 , 11.629 mins elapsed. 2023-12-05 21:07:12.53043 : (human_brain_3k : 2 of 2) CellStats : Median Frags = 19890.5 , 11.629 mins elapsed. 2023-12-05 21:07:12.53423 : (human_brain_3k : 2 of 2) CellStats : Median TSS Enrichment = 11.2445 , 11.629 mins elapsed. 2023-12-05 21:07:12.53525 : (human_brain_3k : 2 of 2) Plotting TSS Enrichment Scores, 11.63 mins elapsed. 2023-12-05 21:07:14.832213 : (human_brain_3k : 2 of 2) Adding Metadata to Fragments, 11.668 mins elapsed. 2023-12-05 21:07:15.825659 : (human_brain_3k : 2 of 2) Adding Additional Feature Counts!, 11.684 mins elapsed. 2023-12-05 21:07:51.650043 : (human_brain_3k : 2 of 2) Finished Adding Additional Feature Counts!, 12.281 mins elapsed. 2023-12-05 21:07:51.651459 : (human_brain_3k : 2 of 2) Metadata, Class = DFrame DataFrame with 3368 rows and 12 columns cellNames nFrags nMonoFrags nDiFrags nMultiFrags 1 human_brain_3k#CCTAG.. 99927 53249 29843 16835 2 human_brain_3k#GGAAC.. 99919 36299 40687 22933 3 human_brain_3k#CAGTA.. 99777 41412 38200 20165 4 human_brain_3k#TGGCT.. 99751 46209 35074 18468 5 human_brain_3k#TCAAG.. 99666 41959 37225 20482 ... ... ... ... ... ... 3364 human_brain_3k#ATATA.. 1006 528 415 63 3365 human_brain_3k#CTCAT.. 1004 369 500 135 3366 human_brain_3k#GACTA.. 1001 691 228 82 3367 human_brain_3k#ACCCG.. 1000 506 410 84 3368 human_brain_3k#ATTGC.. 1000 562 315 123 TSSEnrichment ReadsInTSS Keep ReadsInPromoter PromoterRatio 1 4.462 8467 1 14814 0.0741241 2 5.862 15387 1 23161 0.1158989 3 6.730 17428 1 24651 0.1235305 4 12.383 40517 1 47200 0.2365891 5 12.745 42061 1 47764 0.2396203 ... ... ... ... ... ... 3364 5.260 85 1 153 0.0760437 3365 8.610 100 1 126 0.0627490 3366 4.534 158 1 265 0.1323676 3367 9.406 114 1 150 0.0750000 3368 11.269 313 1 387 0.1935000 ReadsInBlacklist BlacklistRatio 1 1300 0.00650475 2 880 0.00440357 3 1010 0.00506129 4 1048 0.00525308 5 896 0.00449501 ... ... ... 3364 12 0.00596421 3365 10 0.00498008 3366 10 0.00499500 3367 10 0.00500000 3368 10 0.00500000 2023-12-05 21:07:51.806591 : (human_brain_3k : 2 of 2) Removing Fragments from Filtered Cells, 12.284 mins elapsed. 2023-12-05 21:07:51.81286 : (human_brain_3k : 2 of 2) Creating Filtered Arrow File, 12.284 mins elapsed. 2023-12-05 21:07:53.472138 : (human_brain_3k : 2 of 2) .filterCellsFromArrow Fragments-Chr-(1 of 24)-chr1, Class = GRanges GRanges object with 8001414 ranges and 1 metadata column: seqnames ranges strand | RG | [1] chr1 10158-10180 * | human_brain_3k#CCTAG.. [2] chr1 601790-601841 * | human_brain_3k#CCTAG.. [3] chr1 787699-788071 * | human_brain_3k#CCTAG.. [4] chr1 822019-822327 * | human_brain_3k#CCTAG.. [5] chr1 850520-850783 * | human_brain_3k#CCTAG.. ... ... ... ... . ... [8001410] chr1 234850389-234850431 * | human_brain_3k#ATTGC.. [8001411] chr1 235097631-235097725 * | human_brain_3k#ATTGC.. [8001412] chr1 235893452-235893686 * | human_brain_3k#ATTGC.. [8001413] chr1 243317227-243317283 * | human_brain_3k#ATTGC.. [8001414] chr1 248664005-248664106 * | human_brain_3k#ATTGC.. ------- seqinfo: 1 sequence from an unspecified genome; no seqlengths 2023-12-05 21:07:53.488555 : (human_brain_3k : 2 of 2) .filterCellsFromArrow Barcodes-Chr-(1 of 24)-chr1, Class = data.frame (human_brain_3k : 2 of 2) .filterCellsFromArrow Barcodes-Chr-(1 of 24)-chr1: nRows = 3360, nCols = 1 bc 1 human_brain_3k#CCTAGTTGTCAATAGT-1 2 human_brain_3k#GGAACCACATCAGTAT-1 3 human_brain_3k#CAGTACCCACTGACCG-1 4 human_brain_3k#TGGCTATAGTTTGAGC-1 5 human_brain_3k#TCAAGTATCCGGTTGA-1 6 human_brain_3k#AATCCGTAGTTAGAGG-1 2023-12-05 21:08:22.704514 : (pbmc_granulocyte_sorted_10k : 1 of 2) Plotting Fragment Size Distribution, 12.799 mins elapsed. 2023-12-05 21:08:24.177152 : (pbmc_granulocyte_sorted_10k : 1 of 2) Computing TSS Enrichment Scores, 12.824 mins elapsed. 2023-12-05 21:09:15.071618 : (human_brain_3k : 2 of 2) Finished Constructing Filtered Arrow File!, 13.672 mins elapsed. 2023-12-05 21:09:15.943552 : (human_brain_3k : 2 of 2) Adding TileMatrix!, 13.686 mins elapsed. 2023-12-05 21:09:23.736423 : human_brain_3k .addTileMat FeatureDF, Class = DFrame DataFrame with 6062095 rows and 3 columns seqnames idx start 1 chr1 1 0 2 chr1 2 500 3 chr1 3 1000 4 chr1 4 1500 5 chr1 5 2000 ... ... ... ... 6062091 chrX 312078 156038500 6062092 chrX 312079 156039000 6062093 chrX 312080 156039500 6062094 chrX 312081 156040000 6062095 chrX 312082 156040500 2023-12-05 21:09:26.635897 : (pbmc_granulocyte_sorted_10k : 1 of 2) Computed TSS Scores!, 1.041 mins elapsed. 2023-12-05 21:09:26.65064 : (pbmc_granulocyte_sorted_10k : 1 of 2) CellStats : Number of Cells Pass Filter = 12222 , 13.865 mins elapsed. 2023-12-05 21:09:26.655441 : (pbmc_granulocyte_sorted_10k : 1 of 2) CellStats : Median Frags = 17109.5 , 13.865 mins elapsed. 2023-12-05 21:09:26.659918 : (pbmc_granulocyte_sorted_10k : 1 of 2) CellStats : Median TSS Enrichment = 18.919 , 13.865 mins elapsed. 2023-12-05 21:09:26.661181 : (pbmc_granulocyte_sorted_10k : 1 of 2) Plotting TSS Enrichment Scores, 13.865 mins elapsed. 2023-12-05 21:09:29.990094 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Metadata to Fragments, 13.92 mins elapsed. 2023-12-05 21:09:30.938958 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding Additional Feature Counts!, 13.936 mins elapsed. 2023-12-05 21:09:33.7383 : Adding TileMatrix to human_brain_3k for Chr (1 of 23)!, 0.293 mins elapsed. 2023-12-05 21:09:37.874446 : NTiles_TileMatrix_1_chr1, Class = numeric NTiles_TileMatrix_1_chr1: length = 1 chr1 497913 2023-12-05 21:09:37.909744 : NCells_TileMatrix_1_chr1, Class = integer NCells_TileMatrix_1_chr1: length = 1 [1] 3360 2023-12-05 21:09:37.917726 : MinTile_TileMatrix_1_chr1, Class = numeric MinTile_TileMatrix_1_chr1: length = 1 [1] 21 2023-12-05 21:09:38.078156 : MaxTile_TileMatrix_1_chr1, Class = numeric MaxTile_TileMatrix_1_chr1: length = 1 [1] 497893 2023-12-05 21:09:38.763009 : MinCell_TileMatrix_1_chr1, Class = integer MinCell_TileMatrix_1_chr1: length = 1 [1] 1 2023-12-05 21:09:38.794646 : MaxCell_TileMatrix_1_chr1, Class = integer MaxCell_TileMatrix_1_chr1: length = 1 [1] 3360 2023-12-05 21:10:27.393054 : (pbmc_granulocyte_sorted_10k : 1 of 2) Finished Adding Additional Feature Counts!, 14.877 mins elapsed. 2023-12-05 21:10:27.394636 : (pbmc_granulocyte_sorted_10k : 1 of 2) Metadata, Class = DFrame DataFrame with 12222 rows and 12 columns cellNames nFrags nMonoFrags nDiFrags nMultiFrags 1 pbmc_granulocyte_sor.. 95883 49886 30010 15987 2 pbmc_granulocyte_sor.. 94243 44906 33503 15834 3 pbmc_granulocyte_sor.. 93795 16369 56565 20861 4 pbmc_granulocyte_sor.. 93604 26965 48758 17881 5 pbmc_granulocyte_sor.. 92975 44353 33374 15248 ... ... ... ... ... ... 12218 pbmc_granulocyte_sor.. 1004 451 456 97 12219 pbmc_granulocyte_sor.. 1002 538 321 143 12220 pbmc_granulocyte_sor.. 1002 649 290 63 12221 pbmc_granulocyte_sor.. 1001 388 521 92 12222 pbmc_granulocyte_sor.. 1000 603 276 121 TSSEnrichment ReadsInTSS Keep ReadsInPromoter PromoterRatio 1 8.053 26524 1 34042 0.1775184 2 3.162 7962 1 15518 0.0823297 3 4.517 3805 1 6487 0.0345807 4 16.052 28964 1 29908 0.1597581 5 19.853 79165 1 79340 0.4266738 ... ... ... ... ... ... 12218 6.566 189 1 283 0.140936 12219 21.308 764 1 803 0.400699 12220 10.458 338 1 442 0.220559 12221 7.096 172 1 213 0.106394 12222 18.201 864 1 997 0.498500 ReadsInBlacklist BlacklistRatio 1 1204 0.00627849 2 1056 0.00560254 3 1564 0.00833733 4 1073 0.00573159 5 1315 0.00707179 ... ... ... 12218 4 0.00199203 12219 22 0.01097804 12220 20 0.00998004 12221 20 0.00999001 12222 10 0.00500000 2023-12-05 21:10:27.697005 : (pbmc_granulocyte_sorted_10k : 1 of 2) Removing Fragments from Filtered Cells, 14.882 mins elapsed. 2023-12-05 21:10:27.703858 : (pbmc_granulocyte_sorted_10k : 1 of 2) Creating Filtered Arrow File, 14.882 mins elapsed. 2023-12-05 21:10:35.664175 : (pbmc_granulocyte_sorted_10k : 1 of 2) .filterCellsFromArrow Fragments-Chr-(1 of 24)-chr1, Class = GRanges GRanges object with 20886882 ranges and 1 metadata column: seqnames ranges strand | RG | [1] chr1 10158-10210 * | pbmc_granulocyte_sor.. [2] chr1 66133-66173 * | pbmc_granulocyte_sor.. [3] chr1 181362-181521 * | pbmc_granulocyte_sor.. [4] chr1 191451-191542 * | pbmc_granulocyte_sor.. [5] chr1 607329-607361 * | pbmc_granulocyte_sor.. ... ... ... ... . ... [20886878] chr1 234610075-234610115 * | pbmc_granulocyte_sor.. [20886879] chr1 243255949-243256025 * | pbmc_granulocyte_sor.. [20886880] chr1 246506542-246506588 * | pbmc_granulocyte_sor.. [20886881] chr1 247103924-247103949 * | pbmc_granulocyte_sor.. [20886882] chr1 247373785-247373817 * | pbmc_granulocyte_sor.. ------- seqinfo: 1 sequence from an unspecified genome; no seqlengths 2023-12-05 21:10:35.686751 : (pbmc_granulocyte_sorted_10k : 1 of 2) .filterCellsFromArrow Barcodes-Chr-(1 of 24)-chr1, Class = data.frame (pbmc_granulocyte_sorted_10k : 1 of 2) .filterCellsFromArrow Barcodes-Chr-(1 of 24)-chr1: nRows = 12222, nCols = 1 bc 1 pbmc_granulocyte_sorted_10k#GGAGTCTGTGAGCAAG-1 2 pbmc_granulocyte_sorted_10k#TTCATTCAGCCGCTTT-1 3 pbmc_granulocyte_sorted_10k#CAGCAAGCAGTAGGTG-1 4 pbmc_granulocyte_sorted_10k#TAGCTAGGTTTGGGTA-1 5 pbmc_granulocyte_sorted_10k#ACGAACAAGACACTTA-1 6 pbmc_granulocyte_sorted_10k#ATTTGCAAGCCGCAAC-1 2023-12-05 21:10:48.588289 : Adding TileMatrix to human_brain_3k for Chr (2 of 23)!, 1.541 mins elapsed. 2023-12-05 21:10:49.373953 : NTiles_TileMatrix_2_chr2, Class = numeric NTiles_TileMatrix_2_chr2: length = 1 chr2 484388 2023-12-05 21:10:49.377855 : NCells_TileMatrix_2_chr2, Class = integer NCells_TileMatrix_2_chr2: length = 1 [1] 3360 2023-12-05 21:10:49.381388 : MinTile_TileMatrix_2_chr2, Class = numeric MinTile_TileMatrix_2_chr2: length = 1 [1] 21 2023-12-05 21:10:49.391583 : MaxTile_TileMatrix_2_chr2, Class = numeric MaxTile_TileMatrix_2_chr2: length = 1 [1] 484367 2023-12-05 21:10:49.431549 : MinCell_TileMatrix_2_chr2, Class = integer MinCell_TileMatrix_2_chr2: length = 1 [1] 1 2023-12-05 21:10:49.435165 : MaxCell_TileMatrix_2_chr2, Class = integer MaxCell_TileMatrix_2_chr2: length = 1 [1] 3360 2023-12-05 21:11:13.867466 : Adding TileMatrix to human_brain_3k for Chr (3 of 23)!, 1.962 mins elapsed. 2023-12-05 21:11:14.558511 : NTiles_TileMatrix_3_chr3, Class = numeric NTiles_TileMatrix_3_chr3: length = 1 chr3 396592 2023-12-05 21:11:14.562761 : NCells_TileMatrix_3_chr3, Class = integer NCells_TileMatrix_3_chr3: length = 1 [1] 3360 2023-12-05 21:11:14.566627 : MinTile_TileMatrix_3_chr3, Class = numeric MinTile_TileMatrix_3_chr3: length = 1 [1] 21 2023-12-05 21:11:14.576291 : MaxTile_TileMatrix_3_chr3, Class = numeric MaxTile_TileMatrix_3_chr3: length = 1 [1] 396382 2023-12-05 21:11:14.625041 : MinCell_TileMatrix_3_chr3, Class = integer MinCell_TileMatrix_3_chr3: length = 1 [1] 1 2023-12-05 21:11:14.629179 : MaxCell_TileMatrix_3_chr3, Class = integer MaxCell_TileMatrix_3_chr3: length = 1 [1] 3360 2023-12-05 21:11:31.25067 : Adding TileMatrix to human_brain_3k for Chr (4 of 23)!, 2.252 mins elapsed. 2023-12-05 21:11:31.786743 : NTiles_TileMatrix_4_chr4, Class = numeric NTiles_TileMatrix_4_chr4: length = 1 chr4 380430 2023-12-05 21:11:31.791088 : NCells_TileMatrix_4_chr4, Class = integer NCells_TileMatrix_4_chr4: length = 1 [1] 3360 2023-12-05 21:11:31.795236 : MinTile_TileMatrix_4_chr4, Class = numeric MinTile_TileMatrix_4_chr4: length = 1 [1] 21 2023-12-05 21:11:31.804976 : MaxTile_TileMatrix_4_chr4, Class = numeric MaxTile_TileMatrix_4_chr4: length = 1 [1] 380410 2023-12-05 21:11:31.845123 : MinCell_TileMatrix_4_chr4, Class = integer MinCell_TileMatrix_4_chr4: length = 1 [1] 1 2023-12-05 21:11:31.848663 : MaxCell_TileMatrix_4_chr4, Class = integer MaxCell_TileMatrix_4_chr4: length = 1 [1] 3360 2023-12-05 21:11:45.063346 : Adding TileMatrix to human_brain_3k for Chr (5 of 23)!, 2.482 mins elapsed. 2023-12-05 21:11:45.644379 : NTiles_TileMatrix_5_chr5, Class = numeric NTiles_TileMatrix_5_chr5: length = 1 chr5 363077 2023-12-05 21:11:45.649414 : NCells_TileMatrix_5_chr5, Class = integer NCells_TileMatrix_5_chr5: length = 1 [1] 3360 2023-12-05 21:11:45.654088 : MinTile_TileMatrix_5_chr5, Class = numeric MinTile_TileMatrix_5_chr5: length = 1 [1] 21 2023-12-05 21:11:45.664743 : MaxTile_TileMatrix_5_chr5, Class = numeric MaxTile_TileMatrix_5_chr5: length = 1 [1] 362956 2023-12-05 21:11:45.701206 : MinCell_TileMatrix_5_chr5, Class = integer MinCell_TileMatrix_5_chr5: length = 1 [1] 1 2023-12-05 21:11:45.706031 : MaxCell_TileMatrix_5_chr5, Class = integer MaxCell_TileMatrix_5_chr5: length = 1 [1] 3360 2023-12-05 21:11:55.102546 : (pbmc_granulocyte_sorted_10k : 1 of 2) Finished Constructing Filtered Arrow File!, 16.339 mins elapsed. 2023-12-05 21:11:55.315066 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding TileMatrix!, 16.343 mins elapsed. 2023-12-05 21:11:57.192452 : pbmc_granulocyte_sorted_10k .addTileMat FeatureDF, Class = DFrame DataFrame with 6062095 rows and 3 columns seqnames idx start 1 chr1 1 0 2 chr1 2 500 3 chr1 3 1000 4 chr1 4 1500 5 chr1 5 2000 ... ... ... ... 6062091 chrX 312078 156038500 6062092 chrX 312079 156039000 6062093 chrX 312080 156039500 6062094 chrX 312081 156040000 6062095 chrX 312082 156040500 2023-12-05 21:11:58.45153 : Adding TileMatrix to human_brain_3k for Chr (6 of 23)!, 2.705 mins elapsed. 2023-12-05 21:11:59.086012 : NTiles_TileMatrix_6_chr6, Class = numeric NTiles_TileMatrix_6_chr6: length = 1 chr6 341612 2023-12-05 21:11:59.090668 : NCells_TileMatrix_6_chr6, Class = integer NCells_TileMatrix_6_chr6: length = 1 [1] 3360 2023-12-05 21:11:59.095202 : MinTile_TileMatrix_6_chr6, Class = numeric MinTile_TileMatrix_6_chr6: length = 1 [1] 128 2023-12-05 21:11:59.105186 : MaxTile_TileMatrix_6_chr6, Class = numeric MaxTile_TileMatrix_6_chr6: length = 1 [1] 341485 2023-12-05 21:11:59.147843 : MinCell_TileMatrix_6_chr6, Class = integer MinCell_TileMatrix_6_chr6: length = 1 [1] 1 2023-12-05 21:11:59.151354 : MaxCell_TileMatrix_6_chr6, Class = integer MaxCell_TileMatrix_6_chr6: length = 1 [1] 3360 2023-12-05 21:12:06.766725 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (1 of 23)!, 0.19 mins elapsed. 2023-12-05 21:12:11.718795 : Adding TileMatrix to human_brain_3k for Chr (7 of 23)!, 2.926 mins elapsed. 2023-12-05 21:12:12.216787 : NTiles_TileMatrix_7_chr7, Class = numeric NTiles_TileMatrix_7_chr7: length = 1 chr7 318692 2023-12-05 21:12:12.221209 : NCells_TileMatrix_7_chr7, Class = integer NCells_TileMatrix_7_chr7: length = 1 [1] 3360 2023-12-05 21:12:12.225565 : MinTile_TileMatrix_7_chr7, Class = numeric MinTile_TileMatrix_7_chr7: length = 1 [1] 21 2023-12-05 21:12:12.235664 : MaxTile_TileMatrix_7_chr7, Class = numeric MaxTile_TileMatrix_7_chr7: length = 1 [1] 318672 2023-12-05 21:12:12.277274 : MinCell_TileMatrix_7_chr7, Class = integer MinCell_TileMatrix_7_chr7: length = 1 [1] 1 2023-12-05 21:12:12.281622 : MaxCell_TileMatrix_7_chr7, Class = integer MaxCell_TileMatrix_7_chr7: length = 1 [1] 3360 2023-12-05 21:12:13.108118 : NTiles_TileMatrix_1_chr1, Class = numeric NTiles_TileMatrix_1_chr1: length = 1 chr1 497913 2023-12-05 21:12:13.113091 : NCells_TileMatrix_1_chr1, Class = integer NCells_TileMatrix_1_chr1: length = 1 [1] 12222 2023-12-05 21:12:13.117994 : MinTile_TileMatrix_1_chr1, Class = numeric MinTile_TileMatrix_1_chr1: length = 1 [1] 21 2023-12-05 21:12:13.149021 : MaxTile_TileMatrix_1_chr1, Class = numeric MaxTile_TileMatrix_1_chr1: length = 1 [1] 497893 2023-12-05 21:12:13.314502 : MinCell_TileMatrix_1_chr1, Class = integer MinCell_TileMatrix_1_chr1: length = 1 [1] 1 2023-12-05 21:12:13.318878 : MaxCell_TileMatrix_1_chr1, Class = integer MaxCell_TileMatrix_1_chr1: length = 1 [1] 12222 2023-12-05 21:12:24.558498 : Adding TileMatrix to human_brain_3k for Chr (8 of 23)!, 3.14 mins elapsed. 2023-12-05 21:12:25.008193 : NTiles_TileMatrix_8_chr8, Class = numeric NTiles_TileMatrix_8_chr8: length = 1 chr8 290278 2023-12-05 21:12:25.012899 : NCells_TileMatrix_8_chr8, Class = integer NCells_TileMatrix_8_chr8: length = 1 [1] 3360 2023-12-05 21:12:25.017518 : MinTile_TileMatrix_8_chr8, Class = numeric MinTile_TileMatrix_8_chr8: length = 1 [1] 151 2023-12-05 21:12:25.026121 : MaxTile_TileMatrix_8_chr8, Class = numeric MaxTile_TileMatrix_8_chr8: length = 1 [1] 290153 2023-12-05 21:12:25.058166 : MinCell_TileMatrix_8_chr8, Class = integer MinCell_TileMatrix_8_chr8: length = 1 [1] 1 2023-12-05 21:12:25.062709 : MaxCell_TileMatrix_8_chr8, Class = integer MaxCell_TileMatrix_8_chr8: length = 1 [1] 3360 2023-12-05 21:12:35.121512 : Adding TileMatrix to human_brain_3k for Chr (9 of 23)!, 3.316 mins elapsed. 2023-12-05 21:12:35.612598 : NTiles_TileMatrix_9_chr9, Class = numeric NTiles_TileMatrix_9_chr9: length = 1 chr9 276790 2023-12-05 21:12:35.617776 : NCells_TileMatrix_9_chr9, Class = integer NCells_TileMatrix_9_chr9: length = 1 [1] 3360 2023-12-05 21:12:35.622449 : MinTile_TileMatrix_9_chr9, Class = numeric MinTile_TileMatrix_9_chr9: length = 1 [1] 21 2023-12-05 21:12:35.63152 : MaxTile_TileMatrix_9_chr9, Class = numeric MaxTile_TileMatrix_9_chr9: length = 1 [1] 276621 2023-12-05 21:12:35.666687 : MinCell_TileMatrix_9_chr9, Class = integer MinCell_TileMatrix_9_chr9: length = 1 [1] 1 2023-12-05 21:12:35.671769 : MaxCell_TileMatrix_9_chr9, Class = integer MaxCell_TileMatrix_9_chr9: length = 1 [1] 3360 2023-12-05 21:12:45.687594 : Adding TileMatrix to human_brain_3k for Chr (10 of 23)!, 3.493 mins elapsed. 2023-12-05 21:12:46.214818 : NTiles_TileMatrix_10_chr10, Class = numeric NTiles_TileMatrix_10_chr10: length = 1 chr10 267595 2023-12-05 21:12:46.219886 : NCells_TileMatrix_10_chr10, Class = integer NCells_TileMatrix_10_chr10: length = 1 [1] 3360 2023-12-05 21:12:46.223774 : MinTile_TileMatrix_10_chr10, Class = numeric MinTile_TileMatrix_10_chr10: length = 1 [1] 21 2023-12-05 21:12:46.232666 : MaxTile_TileMatrix_10_chr10, Class = numeric MaxTile_TileMatrix_10_chr10: length = 1 [1] 267575 2023-12-05 21:12:46.266261 : MinCell_TileMatrix_10_chr10, Class = integer MinCell_TileMatrix_10_chr10: length = 1 [1] 1 2023-12-05 21:12:46.270207 : MaxCell_TileMatrix_10_chr10, Class = integer MaxCell_TileMatrix_10_chr10: length = 1 [1] 3360 2023-12-05 21:12:56.793718 : Adding TileMatrix to human_brain_3k for Chr (11 of 23)!, 3.678 mins elapsed. 2023-12-05 21:12:57.385607 : NTiles_TileMatrix_11_chr11, Class = numeric NTiles_TileMatrix_11_chr11: length = 1 chr11 270174 2023-12-05 21:12:57.390845 : NCells_TileMatrix_11_chr11, Class = integer NCells_TileMatrix_11_chr11: length = 1 [1] 3360 2023-12-05 21:12:57.395164 : MinTile_TileMatrix_11_chr11, Class = numeric MinTile_TileMatrix_11_chr11: length = 1 [1] 210 2023-12-05 21:12:57.405767 : MaxTile_TileMatrix_11_chr11, Class = numeric MaxTile_TileMatrix_11_chr11: length = 1 [1] 270154 2023-12-05 21:12:57.447354 : MinCell_TileMatrix_11_chr11, Class = integer MinCell_TileMatrix_11_chr11: length = 1 [1] 1 2023-12-05 21:12:57.451354 : MaxCell_TileMatrix_11_chr11, Class = integer MaxCell_TileMatrix_11_chr11: length = 1 [1] 3360 2023-12-05 21:13:09.132704 : Adding TileMatrix to human_brain_3k for Chr (12 of 23)!, 3.883 mins elapsed. 2023-12-05 21:13:09.656786 : NTiles_TileMatrix_12_chr12, Class = numeric NTiles_TileMatrix_12_chr12: length = 1 chr12 266551 2023-12-05 21:13:09.661353 : NCells_TileMatrix_12_chr12, Class = integer NCells_TileMatrix_12_chr12: length = 1 [1] 3360 2023-12-05 21:13:09.665531 : MinTile_TileMatrix_12_chr12, Class = numeric MinTile_TileMatrix_12_chr12: length = 1 [1] 21 2023-12-05 21:13:09.676222 : MaxTile_TileMatrix_12_chr12, Class = numeric MaxTile_TileMatrix_12_chr12: length = 1 [1] 266530 2023-12-05 21:13:09.714285 : MinCell_TileMatrix_12_chr12, Class = integer MinCell_TileMatrix_12_chr12: length = 1 [1] 1 2023-12-05 21:13:09.718244 : MaxCell_TileMatrix_12_chr12, Class = integer MaxCell_TileMatrix_12_chr12: length = 1 [1] 3360 2023-12-05 21:13:18.355829 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (2 of 23)!, 1.383 mins elapsed. 2023-12-05 21:13:19.764199 : Adding TileMatrix to human_brain_3k for Chr (13 of 23)!, 4.061 mins elapsed. 2023-12-05 21:13:20.100389 : NTiles_TileMatrix_13_chr13, Class = numeric NTiles_TileMatrix_13_chr13: length = 1 chr13 228729 2023-12-05 21:13:20.105053 : NCells_TileMatrix_13_chr13, Class = integer NCells_TileMatrix_13_chr13: length = 1 [1] 3360 2023-12-05 21:13:20.109555 : MinTile_TileMatrix_13_chr13, Class = numeric MinTile_TileMatrix_13_chr13: length = 1 [1] 32763 2023-12-05 21:13:20.129205 : NTiles_TileMatrix_2_chr2, Class = numeric NTiles_TileMatrix_2_chr2: length = 1 chr2 484388 2023-12-05 21:13:20.117183 : MaxTile_TileMatrix_13_chr13, Class = numeric MaxTile_TileMatrix_13_chr13: length = 1 [1] 228709 2023-12-05 21:13:20.133289 : NCells_TileMatrix_2_chr2, Class = integer NCells_TileMatrix_2_chr2: length = 1 [1] 12222 2023-12-05 21:13:20.135194 : MinCell_TileMatrix_13_chr13, Class = integer MinCell_TileMatrix_13_chr13: length = 1 [1] 1 2023-12-05 21:13:20.139357 : MaxCell_TileMatrix_13_chr13, Class = integer MaxCell_TileMatrix_13_chr13: length = 1 [1] 3360 2023-12-05 21:13:20.137514 : MinTile_TileMatrix_2_chr2, Class = numeric MinTile_TileMatrix_2_chr2: length = 1 [1] 21 2023-12-05 21:13:20.160296 : MaxTile_TileMatrix_2_chr2, Class = numeric MaxTile_TileMatrix_2_chr2: length = 1 [1] 484367 2023-12-05 21:13:20.288249 : MinCell_TileMatrix_2_chr2, Class = integer MinCell_TileMatrix_2_chr2: length = 1 [1] 1 2023-12-05 21:13:20.292839 : MaxCell_TileMatrix_2_chr2, Class = integer MaxCell_TileMatrix_2_chr2: length = 1 [1] 12222 2023-12-05 21:13:26.51161 : Adding TileMatrix to human_brain_3k for Chr (14 of 23)!, 4.173 mins elapsed. 2023-12-05 21:13:26.921632 : NTiles_TileMatrix_14_chr14, Class = numeric NTiles_TileMatrix_14_chr14: length = 1 chr14 214088 2023-12-05 21:13:26.925812 : NCells_TileMatrix_14_chr14, Class = integer NCells_TileMatrix_14_chr14: length = 1 [1] 3360 2023-12-05 21:13:26.929879 : MinTile_TileMatrix_14_chr14, Class = numeric MinTile_TileMatrix_14_chr14: length = 1 [1] 32047 2023-12-05 21:13:26.936988 : MaxTile_TileMatrix_14_chr14, Class = numeric MaxTile_TileMatrix_14_chr14: length = 1 [1] 213768 2023-12-05 21:13:26.958917 : MinCell_TileMatrix_14_chr14, Class = integer MinCell_TileMatrix_14_chr14: length = 1 [1] 1 2023-12-05 21:13:26.963166 : MaxCell_TileMatrix_14_chr14, Class = integer MaxCell_TileMatrix_14_chr14: length = 1 [1] 3360 2023-12-05 21:13:33.84402 : Adding TileMatrix to human_brain_3k for Chr (15 of 23)!, 4.295 mins elapsed. 2023-12-05 21:13:34.159173 : NTiles_TileMatrix_15_chr15, Class = numeric NTiles_TileMatrix_15_chr15: length = 1 chr15 203983 2023-12-05 21:13:34.163139 : NCells_TileMatrix_15_chr15, Class = integer NCells_TileMatrix_15_chr15: length = 1 [1] 3360 2023-12-05 21:13:34.166943 : MinTile_TileMatrix_15_chr15, Class = numeric MinTile_TileMatrix_15_chr15: length = 1 [1] 34007 2023-12-05 21:13:34.174612 : MaxTile_TileMatrix_15_chr15, Class = numeric MaxTile_TileMatrix_15_chr15: length = 1 [1] 203963 2023-12-05 21:13:34.195795 : MinCell_TileMatrix_15_chr15, Class = integer MinCell_TileMatrix_15_chr15: length = 1 [1] 1 2023-12-05 21:13:34.199884 : MaxCell_TileMatrix_15_chr15, Class = integer MaxCell_TileMatrix_15_chr15: length = 1 [1] 3360 2023-12-05 21:13:41.06044 : Adding TileMatrix to human_brain_3k for Chr (16 of 23)!, 4.415 mins elapsed. 2023-12-05 21:13:41.438139 : NTiles_TileMatrix_16_chr16, Class = numeric NTiles_TileMatrix_16_chr16: length = 1 chr16 180677 2023-12-05 21:13:41.443252 : NCells_TileMatrix_16_chr16, Class = integer NCells_TileMatrix_16_chr16: length = 1 [1] 3360 2023-12-05 21:13:41.447673 : MinTile_TileMatrix_16_chr16, Class = numeric MinTile_TileMatrix_16_chr16: length = 1 [1] 20 2023-12-05 21:13:41.456168 : MaxTile_TileMatrix_16_chr16, Class = numeric MaxTile_TileMatrix_16_chr16: length = 1 [1] 180453 2023-12-05 21:13:41.484218 : MinCell_TileMatrix_16_chr16, Class = integer MinCell_TileMatrix_16_chr16: length = 1 [1] 1 2023-12-05 21:13:41.487967 : MaxCell_TileMatrix_16_chr16, Class = integer MaxCell_TileMatrix_16_chr16: length = 1 [1] 3360 2023-12-05 21:13:48.593587 : Adding TileMatrix to human_brain_3k for Chr (17 of 23)!, 4.541 mins elapsed. 2023-12-05 21:13:49.167452 : NTiles_TileMatrix_17_chr17, Class = numeric NTiles_TileMatrix_17_chr17: length = 1 chr17 166515 2023-12-05 21:13:49.172336 : NCells_TileMatrix_17_chr17, Class = integer NCells_TileMatrix_17_chr17: length = 1 [1] 3360 2023-12-05 21:13:49.176746 : MinTile_TileMatrix_17_chr17, Class = numeric MinTile_TileMatrix_17_chr17: length = 1 [1] 227 2023-12-05 21:13:49.186363 : MaxTile_TileMatrix_17_chr17, Class = numeric MaxTile_TileMatrix_17_chr17: length = 1 [1] 166495 2023-12-05 21:13:49.21825 : MinCell_TileMatrix_17_chr17, Class = integer MinCell_TileMatrix_17_chr17: length = 1 [1] 1 2023-12-05 21:13:49.222535 : MaxCell_TileMatrix_17_chr17, Class = integer MaxCell_TileMatrix_17_chr17: length = 1 [1] 3360 2023-12-05 21:13:57.089222 : Adding TileMatrix to human_brain_3k for Chr (18 of 23)!, 4.683 mins elapsed. 2023-12-05 21:13:57.328925 : NTiles_TileMatrix_18_chr18, Class = numeric NTiles_TileMatrix_18_chr18: length = 1 chr18 160747 2023-12-05 21:13:57.333994 : NCells_TileMatrix_18_chr18, Class = integer NCells_TileMatrix_18_chr18: length = 1 [1] 3360 2023-12-05 21:13:57.338524 : MinTile_TileMatrix_18_chr18, Class = numeric MinTile_TileMatrix_18_chr18: length = 1 [1] 21 2023-12-05 21:13:57.345718 : MaxTile_TileMatrix_18_chr18, Class = numeric MaxTile_TileMatrix_18_chr18: length = 1 [1] 160527 2023-12-05 21:13:57.362808 : MinCell_TileMatrix_18_chr18, Class = integer MinCell_TileMatrix_18_chr18: length = 1 [1] 1 2023-12-05 21:13:57.366818 : MaxCell_TileMatrix_18_chr18, Class = integer MaxCell_TileMatrix_18_chr18: length = 1 [1] 3360 2023-12-05 21:14:02.760688 : Adding TileMatrix to human_brain_3k for Chr (19 of 23)!, 4.777 mins elapsed. 2023-12-05 21:14:03.149979 : NTiles_TileMatrix_19_chr19, Class = numeric NTiles_TileMatrix_19_chr19: length = 1 chr19 117236 2023-12-05 21:14:03.154735 : NCells_TileMatrix_19_chr19, Class = integer NCells_TileMatrix_19_chr19: length = 1 [1] 3360 2023-12-05 21:14:03.159087 : MinTile_TileMatrix_19_chr19, Class = numeric MinTile_TileMatrix_19_chr19: length = 1 [1] 123 2023-12-05 21:14:03.167058 : MaxTile_TileMatrix_19_chr19, Class = numeric MaxTile_TileMatrix_19_chr19: length = 1 [1] 117216 2023-12-05 21:14:03.193295 : MinCell_TileMatrix_19_chr19, Class = integer MinCell_TileMatrix_19_chr19: length = 1 [1] 1 2023-12-05 21:14:03.196993 : MaxCell_TileMatrix_19_chr19, Class = integer MaxCell_TileMatrix_19_chr19: length = 1 [1] 3360 2023-12-05 21:14:04.18662 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (3 of 23)!, 2.147 mins elapsed. 2023-12-05 21:14:05.667148 : NTiles_TileMatrix_3_chr3, Class = numeric NTiles_TileMatrix_3_chr3: length = 1 chr3 396592 2023-12-05 21:14:05.671901 : NCells_TileMatrix_3_chr3, Class = integer NCells_TileMatrix_3_chr3: length = 1 [1] 12222 2023-12-05 21:14:05.675749 : MinTile_TileMatrix_3_chr3, Class = numeric MinTile_TileMatrix_3_chr3: length = 1 [1] 21 2023-12-05 21:14:05.693584 : MaxTile_TileMatrix_3_chr3, Class = numeric MaxTile_TileMatrix_3_chr3: length = 1 [1] 396441 2023-12-05 21:14:05.791879 : MinCell_TileMatrix_3_chr3, Class = integer MinCell_TileMatrix_3_chr3: length = 1 [1] 1 2023-12-05 21:14:05.796671 : MaxCell_TileMatrix_3_chr3, Class = integer MaxCell_TileMatrix_3_chr3: length = 1 [1] 12222 2023-12-05 21:14:09.059353 : Adding TileMatrix to human_brain_3k for Chr (20 of 23)!, 4.882 mins elapsed. 2023-12-05 21:14:09.325196 : NTiles_TileMatrix_20_chr20, Class = numeric NTiles_TileMatrix_20_chr20: length = 1 chr20 128889 2023-12-05 21:14:09.330377 : NCells_TileMatrix_20_chr20, Class = integer NCells_TileMatrix_20_chr20: length = 1 [1] 3360 2023-12-05 21:14:09.335132 : MinTile_TileMatrix_20_chr20, Class = numeric MinTile_TileMatrix_20_chr20: length = 1 [1] 121 2023-12-05 21:14:09.342098 : MaxTile_TileMatrix_20_chr20, Class = numeric MaxTile_TileMatrix_20_chr20: length = 1 [1] 128669 2023-12-05 21:14:09.359366 : MinCell_TileMatrix_20_chr20, Class = integer MinCell_TileMatrix_20_chr20: length = 1 [1] 1 2023-12-05 21:14:09.363968 : MaxCell_TileMatrix_20_chr20, Class = integer MaxCell_TileMatrix_20_chr20: length = 1 [1] 3360 2023-12-05 21:14:14.339684 : Adding TileMatrix to human_brain_3k for Chr (21 of 23)!, 4.97 mins elapsed. 2023-12-05 21:14:14.48882 : NTiles_TileMatrix_21_chr21, Class = numeric NTiles_TileMatrix_21_chr21: length = 1 chr21 93420 2023-12-05 21:14:14.494122 : NCells_TileMatrix_21_chr21, Class = integer NCells_TileMatrix_21_chr21: length = 1 [1] 3360 2023-12-05 21:14:14.499095 : MinTile_TileMatrix_21_chr21, Class = numeric MinTile_TileMatrix_21_chr21: length = 1 [1] 10055 2023-12-05 21:14:14.505483 : MaxTile_TileMatrix_21_chr21, Class = numeric MaxTile_TileMatrix_21_chr21: length = 1 [1] 93400 2023-12-05 21:14:14.518224 : MinCell_TileMatrix_21_chr21, Class = integer MinCell_TileMatrix_21_chr21: length = 1 [1] 1 2023-12-05 21:14:14.522892 : MaxCell_TileMatrix_21_chr21, Class = integer MaxCell_TileMatrix_21_chr21: length = 1 [1] 3360 2023-12-05 21:14:18.49757 : Adding TileMatrix to human_brain_3k for Chr (22 of 23)!, 5.039 mins elapsed. 2023-12-05 21:14:18.797263 : NTiles_TileMatrix_22_chr22, Class = numeric NTiles_TileMatrix_22_chr22: length = 1 chr22 101637 2023-12-05 21:14:18.802281 : NCells_TileMatrix_22_chr22, Class = integer NCells_TileMatrix_22_chr22: length = 1 [1] 3360 2023-12-05 21:14:18.806856 : MinTile_TileMatrix_22_chr22, Class = numeric MinTile_TileMatrix_22_chr22: length = 1 [1] 21053 2023-12-05 21:14:18.814874 : MaxTile_TileMatrix_22_chr22, Class = numeric MaxTile_TileMatrix_22_chr22: length = 1 [1] 101617 2023-12-05 21:14:18.834935 : MinCell_TileMatrix_22_chr22, Class = integer MinCell_TileMatrix_22_chr22: length = 1 [1] 1 2023-12-05 21:14:18.839767 : MaxCell_TileMatrix_22_chr22, Class = integer MaxCell_TileMatrix_22_chr22: length = 1 [1] 3360 2023-12-05 21:14:23.586185 : Adding TileMatrix to human_brain_3k for Chr (23 of 23)!, 5.124 mins elapsed. 2023-12-05 21:14:23.892029 : NTiles_TileMatrix_23_chrX, Class = numeric NTiles_TileMatrix_23_chrX: length = 1 chrX 312082 2023-12-05 21:14:23.896831 : NCells_TileMatrix_23_chrX, Class = integer NCells_TileMatrix_23_chrX: length = 1 [1] 3360 2023-12-05 21:14:23.901443 : MinTile_TileMatrix_23_chrX, Class = numeric MinTile_TileMatrix_23_chrX: length = 1 [1] 21 2023-12-05 21:14:23.908766 : MaxTile_TileMatrix_23_chrX, Class = numeric MaxTile_TileMatrix_23_chrX: length = 1 [1] 312062 2023-12-05 21:14:23.928416 : MinCell_TileMatrix_23_chrX, Class = integer MinCell_TileMatrix_23_chrX: length = 1 [1] 1 2023-12-05 21:14:23.933155 : MaxCell_TileMatrix_23_chrX, Class = integer MaxCell_TileMatrix_23_chrX: length = 1 [1] 3360 2023-12-05 21:14:31.690567 : (human_brain_3k : 2 of 2) Finished Adding TileMatrix!, 18.949 mins elapsed. 2023-12-05 21:14:31.692728 : (human_brain_3k : 2 of 2) Adding GeneScoreMatrix!, 18.949 mins elapsed. 2023-12-05 21:14:31.97193 : human_brain_3k .addGeneScoreMat geneRegions, Class = GRanges GRanges object with 36448 ranges and 5 metadata columns: seqnames ranges strand | gene_id symbol | [1] chr1 24554-31109 + | ENSG00000243485 MIR1302-2HG [2] chr1 34554-41081 - | ENSG00000237613 FAM138A [3] chr1 60419-71585 + | ENSG00000186092 OR4F5 [4] chr1 89295-138723 - | ENSG00000238009 AL627309.1 [5] chr1 89551-96105 - | ENSG00000239945 AL627309.3 ... ... ... ... . ... ... [36444] chrX 155489011-155674944 - | ENSG00000185973 TMLHE [36445] chrX 155762812-155782459 + | ENSG00000168939 SPRY3 [36446] chrX 155876345-155943769 + | ENSG00000124333 VAMP7 [36447] chrX 155992581-156010817 + | ENSG00000124334 IL9R [36448] chrX 156014623-156021837 - | ENSG00000185203 WASIR1 geneStart geneEnd geneWeight [1] 29554 31109 4.06171 [2] 36081 34554 4.07484 [3] 65419 71585 2.79749 [4] 133723 89295 1.40609 [5] 91105 89551 4.06218 ... ... ... ... [36444] 155669944 155489011 1.10796 [36445] 155767812 155782459 2.02161 [36446] 155881345 155943769 1.29770 [36447] 155997581 156010817 2.10065 [36448] 156016837 156014623 3.78206 ------- seqinfo: 23 sequences from an unspecified genome; no seqlengths 2023-12-05 21:14:32.278794 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (1 of 23)!, 0.001 mins elapsed. 2023-12-05 21:14:32.308225 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (2 of 23)!, 0.002 mins elapsed. 2023-12-05 21:14:32.349362 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (3 of 23)!, 0.002 mins elapsed. 2023-12-05 21:14:32.40406 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (4 of 23)!, 0.003 mins elapsed. 2023-12-05 21:14:32.43194 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (5 of 23)!, 0.004 mins elapsed. 2023-12-05 21:14:32.465941 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (6 of 23)!, 0.004 mins elapsed. 2023-12-05 21:14:32.499249 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (7 of 23)!, 0.005 mins elapsed. 2023-12-05 21:14:32.536969 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (8 of 23)!, 0.005 mins elapsed. 2023-12-05 21:14:32.567537 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (9 of 23)!, 0.006 mins elapsed. 2023-12-05 21:14:32.60012 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (10 of 23)!, 0.006 mins elapsed. 2023-12-05 21:14:32.645688 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (11 of 23)!, 0.007 mins elapsed. 2023-12-05 21:14:32.647135 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (12 of 23)!, 0.007 mins elapsed. 2023-12-05 21:14:32.70542 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (13 of 23)!, 0.008 mins elapsed. 2023-12-05 21:14:32.745125 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (14 of 23)!, 0.009 mins elapsed. 2023-12-05 21:14:32.791658 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (15 of 23)!, 0.01 mins elapsed. 2023-12-05 21:14:32.852192 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (16 of 23)!, 0.011 mins elapsed. 2023-12-05 21:14:32.891653 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (17 of 23)!, 0.011 mins elapsed. 2023-12-05 21:14:32.942955 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (18 of 23)!, 0.012 mins elapsed. 2023-12-05 21:14:32.995647 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (19 of 23)!, 0.013 mins elapsed. 2023-12-05 21:14:33.040079 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (20 of 23)!, 0.014 mins elapsed. 2023-12-05 21:14:33.093102 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (21 of 23)!, 0.015 mins elapsed. 2023-12-05 21:14:33.142207 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (22 of 23)!, 0.015 mins elapsed. 2023-12-05 21:14:33.177817 : Creating Temp GeneScoreMatrix for human_brain_3k, Chr (23 of 23)!, 0.016 mins elapsed. 2023-12-05 21:14:34.744339 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (4 of 23)!, 2.656 mins elapsed. 2023-12-05 21:14:35.659878 : NTiles_TileMatrix_4_chr4, Class = numeric NTiles_TileMatrix_4_chr4: length = 1 chr4 380430 2023-12-05 21:14:35.66431 : NCells_TileMatrix_4_chr4, Class = integer NCells_TileMatrix_4_chr4: length = 1 [1] 12222 2023-12-05 21:14:35.668122 : MinTile_TileMatrix_4_chr4, Class = numeric MinTile_TileMatrix_4_chr4: length = 1 [1] 21 2023-12-05 21:14:35.680816 : MaxTile_TileMatrix_4_chr4, Class = numeric MaxTile_TileMatrix_4_chr4: length = 1 [1] 380410 2023-12-05 21:14:35.730518 : MinCell_TileMatrix_4_chr4, Class = integer MinCell_TileMatrix_4_chr4: length = 1 [1] 1 2023-12-05 21:14:35.734622 : MaxCell_TileMatrix_4_chr4, Class = integer MaxCell_TileMatrix_4_chr4: length = 1 [1] 12222 2023-12-05 21:14:58.347766 : human_brain_3k .addGeneScoreMat FeatureDF, Class = data.frame human_brain_3k .addGeneScoreMat FeatureDF: nRows = 36448, nCols = 6 seqnames start end strand name idx 1 chr1 29554 31109 1 MIR1302-2HG 1 2 chr1 36081 34554 2 FAM138A 2 3 chr1 65419 71585 1 OR4F5 3 4 chr1 133723 89295 2 AL627309.1 4 5 chr1 91105 89551 2 AL627309.3 5 6 chr1 140339 139790 2 AL627309.2 6 2023-12-05 21:14:59.620716 : Adding GeneScoreMatrix to human_brain_3k for Chr (1 of 23)!, 0.457 mins elapsed. 2023-12-05 21:15:02.117618 : Adding GeneScoreMatrix to human_brain_3k for Chr (2 of 23)!, 0.498 mins elapsed. 2023-12-05 21:15:04.249319 : Adding GeneScoreMatrix to human_brain_3k for Chr (3 of 23)!, 0.534 mins elapsed. 2023-12-05 21:15:07.000627 : Adding GeneScoreMatrix to human_brain_3k for Chr (4 of 23)!, 0.58 mins elapsed. 2023-12-05 21:15:08.83145 : Adding GeneScoreMatrix to human_brain_3k for Chr (5 of 23)!, 0.61 mins elapsed. 2023-12-05 21:15:10.594025 : Adding GeneScoreMatrix to human_brain_3k for Chr (6 of 23)!, 0.64 mins elapsed. 2023-12-05 21:15:11.656842 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (5 of 23)!, 3.272 mins elapsed. 2023-12-05 21:15:12.697482 : NTiles_TileMatrix_5_chr5, Class = numeric NTiles_TileMatrix_5_chr5: length = 1 chr5 363077 2023-12-05 21:15:12.701762 : NCells_TileMatrix_5_chr5, Class = integer NCells_TileMatrix_5_chr5: length = 1 [1] 12222 2023-12-05 21:15:12.705619 : MinTile_TileMatrix_5_chr5, Class = numeric MinTile_TileMatrix_5_chr5: length = 1 [1] 21 2023-12-05 21:15:12.718577 : MaxTile_TileMatrix_5_chr5, Class = numeric MaxTile_TileMatrix_5_chr5: length = 1 [1] 362956 2023-12-05 21:15:12.782241 : MinCell_TileMatrix_5_chr5, Class = integer MinCell_TileMatrix_5_chr5: length = 1 [1] 1 2023-12-05 21:15:12.786367 : MaxCell_TileMatrix_5_chr5, Class = integer MaxCell_TileMatrix_5_chr5: length = 1 [1] 12222 2023-12-05 21:15:12.983786 : Adding GeneScoreMatrix to human_brain_3k for Chr (7 of 23)!, 0.679 mins elapsed. 2023-12-05 21:15:14.572613 : Adding GeneScoreMatrix to human_brain_3k for Chr (8 of 23)!, 0.706 mins elapsed. 2023-12-05 21:15:16.189431 : Adding GeneScoreMatrix to human_brain_3k for Chr (9 of 23)!, 0.733 mins elapsed. 2023-12-05 21:15:18.436057 : Adding GeneScoreMatrix to human_brain_3k for Chr (10 of 23)!, 0.77 mins elapsed. 2023-12-05 21:15:19.90913 : Adding GeneScoreMatrix to human_brain_3k for Chr (11 of 23)!, 0.795 mins elapsed. 2023-12-05 21:15:21.800617 : Adding GeneScoreMatrix to human_brain_3k for Chr (12 of 23)!, 0.826 mins elapsed. 2023-12-05 21:15:24.527996 : Adding GeneScoreMatrix to human_brain_3k for Chr (13 of 23)!, 0.872 mins elapsed. 2023-12-05 21:15:25.918551 : Adding GeneScoreMatrix to human_brain_3k for Chr (14 of 23)!, 0.895 mins elapsed. 2023-12-05 21:15:27.459206 : Adding GeneScoreMatrix to human_brain_3k for Chr (15 of 23)!, 0.921 mins elapsed. 2023-12-05 21:15:29.819841 : Adding GeneScoreMatrix to human_brain_3k for Chr (16 of 23)!, 0.96 mins elapsed. 2023-12-05 21:15:31.435008 : Adding GeneScoreMatrix to human_brain_3k for Chr (17 of 23)!, 0.987 mins elapsed. 2023-12-05 21:15:33.130209 : Adding GeneScoreMatrix to human_brain_3k for Chr (18 of 23)!, 1.015 mins elapsed. 2023-12-05 21:15:33.792126 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (6 of 23)!, 3.64 mins elapsed. 2023-12-05 21:15:35.128827 : Adding GeneScoreMatrix to human_brain_3k for Chr (19 of 23)!, 1.049 mins elapsed. 2023-12-05 21:15:35.209255 : NTiles_TileMatrix_6_chr6, Class = numeric NTiles_TileMatrix_6_chr6: length = 1 chr6 341612 2023-12-05 21:15:35.214352 : NCells_TileMatrix_6_chr6, Class = integer NCells_TileMatrix_6_chr6: length = 1 [1] 12222 2023-12-05 21:15:35.219354 : MinTile_TileMatrix_6_chr6, Class = numeric MinTile_TileMatrix_6_chr6: length = 1 [1] 128 2023-12-05 21:15:35.240504 : MaxTile_TileMatrix_6_chr6, Class = numeric MaxTile_TileMatrix_6_chr6: length = 1 [1] 341480 2023-12-05 21:15:35.347346 : MinCell_TileMatrix_6_chr6, Class = integer MinCell_TileMatrix_6_chr6: length = 1 [1] 1 2023-12-05 21:15:35.351357 : MaxCell_TileMatrix_6_chr6, Class = integer MaxCell_TileMatrix_6_chr6: length = 1 [1] 12222 2023-12-05 21:15:36.795932 : Adding GeneScoreMatrix to human_brain_3k for Chr (20 of 23)!, 1.076 mins elapsed. 2023-12-05 21:15:38.069406 : Adding GeneScoreMatrix to human_brain_3k for Chr (21 of 23)!, 1.098 mins elapsed. 2023-12-05 21:15:40.140354 : Adding GeneScoreMatrix to human_brain_3k for Chr (22 of 23)!, 1.132 mins elapsed. 2023-12-05 21:15:41.337462 : Adding GeneScoreMatrix to human_brain_3k for Chr (23 of 23)!, 1.152 mins elapsed. 2023-12-05 21:15:44.102113 : (human_brain_3k : 2 of 2) Finished Adding GeneScoreMatrix!, 20.156 mins elapsed. 2023-12-05 21:15:44.104998 : (human_brain_3k : 2 of 2) Finished Creating Arrow File, 20.156 mins elapsed. 2023-12-05 21:15:54.793096 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (7 of 23)!, 3.991 mins elapsed. 2023-12-05 21:15:55.663674 : NTiles_TileMatrix_7_chr7, Class = numeric NTiles_TileMatrix_7_chr7: length = 1 chr7 318692 2023-12-05 21:15:55.66706 : NCells_TileMatrix_7_chr7, Class = integer NCells_TileMatrix_7_chr7: length = 1 [1] 12222 2023-12-05 21:15:55.670088 : MinTile_TileMatrix_7_chr7, Class = numeric MinTile_TileMatrix_7_chr7: length = 1 [1] 21 2023-12-05 21:15:55.682968 : MaxTile_TileMatrix_7_chr7, Class = numeric MaxTile_TileMatrix_7_chr7: length = 1 [1] 318672 2023-12-05 21:15:55.732123 : MinCell_TileMatrix_7_chr7, Class = integer MinCell_TileMatrix_7_chr7: length = 1 [1] 1 2023-12-05 21:15:55.735215 : MaxCell_TileMatrix_7_chr7, Class = integer MaxCell_TileMatrix_7_chr7: length = 1 [1] 12222 2023-12-05 21:16:08.974911 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (8 of 23)!, 4.227 mins elapsed. 2023-12-05 21:16:09.727901 : NTiles_TileMatrix_8_chr8, Class = numeric NTiles_TileMatrix_8_chr8: length = 1 chr8 290278 2023-12-05 21:16:09.732513 : NCells_TileMatrix_8_chr8, Class = integer NCells_TileMatrix_8_chr8: length = 1 [1] 12222 2023-12-05 21:16:09.736299 : MinTile_TileMatrix_8_chr8, Class = numeric MinTile_TileMatrix_8_chr8: length = 1 [1] 143 2023-12-05 21:16:09.748087 : MaxTile_TileMatrix_8_chr8, Class = numeric MaxTile_TileMatrix_8_chr8: length = 1 [1] 290153 2023-12-05 21:16:09.788613 : MinCell_TileMatrix_8_chr8, Class = integer MinCell_TileMatrix_8_chr8: length = 1 [1] 1 2023-12-05 21:16:09.793156 : MaxCell_TileMatrix_8_chr8, Class = integer MaxCell_TileMatrix_8_chr8: length = 1 [1] 12222 2023-12-05 21:16:20.43576 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (9 of 23)!, 4.418 mins elapsed. 2023-12-05 21:16:21.19338 : NTiles_TileMatrix_9_chr9, Class = numeric NTiles_TileMatrix_9_chr9: length = 1 chr9 276790 2023-12-05 21:16:21.197638 : NCells_TileMatrix_9_chr9, Class = integer NCells_TileMatrix_9_chr9: length = 1 [1] 12222 2023-12-05 21:16:21.201682 : MinTile_TileMatrix_9_chr9, Class = numeric MinTile_TileMatrix_9_chr9: length = 1 [1] 21 2023-12-05 21:16:21.212701 : MaxTile_TileMatrix_9_chr9, Class = numeric MaxTile_TileMatrix_9_chr9: length = 1 [1] 276457 2023-12-05 21:16:21.255837 : MinCell_TileMatrix_9_chr9, Class = integer MinCell_TileMatrix_9_chr9: length = 1 [1] 1 2023-12-05 21:16:21.260699 : MaxCell_TileMatrix_9_chr9, Class = integer MaxCell_TileMatrix_9_chr9: length = 1 [1] 12222 2023-12-05 21:16:31.628868 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (10 of 23)!, 4.604 mins elapsed. 2023-12-05 21:16:32.424298 : NTiles_TileMatrix_10_chr10, Class = numeric NTiles_TileMatrix_10_chr10: length = 1 chr10 267595 2023-12-05 21:16:32.428781 : NCells_TileMatrix_10_chr10, Class = integer NCells_TileMatrix_10_chr10: length = 1 [1] 12222 2023-12-05 21:16:32.432452 : MinTile_TileMatrix_10_chr10, Class = numeric MinTile_TileMatrix_10_chr10: length = 1 [1] 21 2023-12-05 21:16:32.444714 : MaxTile_TileMatrix_10_chr10, Class = numeric MaxTile_TileMatrix_10_chr10: length = 1 [1] 267575 2023-12-05 21:16:32.48889 : MinCell_TileMatrix_10_chr10, Class = integer MinCell_TileMatrix_10_chr10: length = 1 [1] 1 2023-12-05 21:16:32.493239 : MaxCell_TileMatrix_10_chr10, Class = integer MaxCell_TileMatrix_10_chr10: length = 1 [1] 12222 2023-12-05 21:16:43.322797 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (11 of 23)!, 4.799 mins elapsed. 2023-12-05 21:16:44.370416 : NTiles_TileMatrix_11_chr11, Class = numeric NTiles_TileMatrix_11_chr11: length = 1 chr11 270174 2023-12-05 21:16:44.374805 : NCells_TileMatrix_11_chr11, Class = integer NCells_TileMatrix_11_chr11: length = 1 [1] 12222 2023-12-05 21:16:44.379207 : MinTile_TileMatrix_11_chr11, Class = numeric MinTile_TileMatrix_11_chr11: length = 1 [1] 227 2023-12-05 21:16:44.393816 : MaxTile_TileMatrix_11_chr11, Class = numeric MaxTile_TileMatrix_11_chr11: length = 1 [1] 270154 2023-12-05 21:16:44.44828 : MinCell_TileMatrix_11_chr11, Class = integer MinCell_TileMatrix_11_chr11: length = 1 [1] 1 2023-12-05 21:16:44.452506 : MaxCell_TileMatrix_11_chr11, Class = integer MaxCell_TileMatrix_11_chr11: length = 1 [1] 12222 2023-12-05 21:16:58.291777 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (12 of 23)!, 5.049 mins elapsed. 2023-12-05 21:16:59.323106 : NTiles_TileMatrix_12_chr12, Class = numeric NTiles_TileMatrix_12_chr12: length = 1 chr12 266551 2023-12-05 21:16:59.327269 : NCells_TileMatrix_12_chr12, Class = integer NCells_TileMatrix_12_chr12: length = 1 [1] 12222 2023-12-05 21:16:59.331228 : MinTile_TileMatrix_12_chr12, Class = numeric MinTile_TileMatrix_12_chr12: length = 1 [1] 21 2023-12-05 21:16:59.345225 : MaxTile_TileMatrix_12_chr12, Class = numeric MaxTile_TileMatrix_12_chr12: length = 1 [1] 266531 2023-12-05 21:16:59.400347 : MinCell_TileMatrix_12_chr12, Class = integer MinCell_TileMatrix_12_chr12: length = 1 [1] 1 2023-12-05 21:16:59.404602 : MaxCell_TileMatrix_12_chr12, Class = integer MaxCell_TileMatrix_12_chr12: length = 1 [1] 12222 2023-12-05 21:17:12.09013 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (13 of 23)!, 5.279 mins elapsed. 2023-12-05 21:17:12.462902 : NTiles_TileMatrix_13_chr13, Class = numeric NTiles_TileMatrix_13_chr13: length = 1 chr13 228729 2023-12-05 21:17:12.46724 : NCells_TileMatrix_13_chr13, Class = integer NCells_TileMatrix_13_chr13: length = 1 [1] 12222 2023-12-05 21:17:12.471208 : MinTile_TileMatrix_13_chr13, Class = numeric MinTile_TileMatrix_13_chr13: length = 1 [1] 34839 2023-12-05 21:17:12.479127 : MaxTile_TileMatrix_13_chr13, Class = numeric MaxTile_TileMatrix_13_chr13: length = 1 [1] 228709 2023-12-05 21:17:12.502427 : MinCell_TileMatrix_13_chr13, Class = integer MinCell_TileMatrix_13_chr13: length = 1 [1] 1 2023-12-05 21:17:12.506204 : MaxCell_TileMatrix_13_chr13, Class = integer MaxCell_TileMatrix_13_chr13: length = 1 [1] 12222 2023-12-05 21:17:17.974339 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (14 of 23)!, 5.377 mins elapsed. 2023-12-05 21:17:18.641805 : NTiles_TileMatrix_14_chr14, Class = numeric NTiles_TileMatrix_14_chr14: length = 1 chr14 214088 2023-12-05 21:17:18.64584 : NCells_TileMatrix_14_chr14, Class = integer NCells_TileMatrix_14_chr14: length = 1 [1] 12222 2023-12-05 21:17:18.649752 : MinTile_TileMatrix_14_chr14, Class = numeric MinTile_TileMatrix_14_chr14: length = 1 [1] 32071 2023-12-05 21:17:18.661527 : MaxTile_TileMatrix_14_chr14, Class = numeric MaxTile_TileMatrix_14_chr14: length = 1 [1] 213768 2023-12-05 21:17:18.698692 : MinCell_TileMatrix_14_chr14, Class = integer MinCell_TileMatrix_14_chr14: length = 1 [1] 1 2023-12-05 21:17:18.702882 : MaxCell_TileMatrix_14_chr14, Class = integer MaxCell_TileMatrix_14_chr14: length = 1 [1] 12222 2023-12-05 21:17:26.262361 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (15 of 23)!, 5.515 mins elapsed. 2023-12-05 21:17:26.81838 : NTiles_TileMatrix_15_chr15, Class = numeric NTiles_TileMatrix_15_chr15: length = 1 chr15 203983 2023-12-05 21:17:26.822106 : NCells_TileMatrix_15_chr15, Class = integer NCells_TileMatrix_15_chr15: length = 1 [1] 12222 2023-12-05 21:17:26.825077 : MinTile_TileMatrix_15_chr15, Class = numeric MinTile_TileMatrix_15_chr15: length = 1 [1] 34020 2023-12-05 21:17:26.833681 : MaxTile_TileMatrix_15_chr15, Class = numeric MaxTile_TileMatrix_15_chr15: length = 1 [1] 203963 2023-12-05 21:17:26.867105 : MinCell_TileMatrix_15_chr15, Class = integer MinCell_TileMatrix_15_chr15: length = 1 [1] 1 2023-12-05 21:17:26.870405 : MaxCell_TileMatrix_15_chr15, Class = integer MaxCell_TileMatrix_15_chr15: length = 1 [1] 12222 2023-12-05 21:17:33.473407 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (16 of 23)!, 5.635 mins elapsed. 2023-12-05 21:17:34.269199 : NTiles_TileMatrix_16_chr16, Class = numeric NTiles_TileMatrix_16_chr16: length = 1 chr16 180677 2023-12-05 21:17:34.273202 : NCells_TileMatrix_16_chr16, Class = integer NCells_TileMatrix_16_chr16: length = 1 [1] 12222 2023-12-05 21:17:34.277068 : MinTile_TileMatrix_16_chr16, Class = numeric MinTile_TileMatrix_16_chr16: length = 1 [1] 21 2023-12-05 21:17:34.289989 : MaxTile_TileMatrix_16_chr16, Class = numeric MaxTile_TileMatrix_16_chr16: length = 1 [1] 180450 2023-12-05 21:17:34.333912 : MinCell_TileMatrix_16_chr16, Class = integer MinCell_TileMatrix_16_chr16: length = 1 [1] 1 2023-12-05 21:17:34.337669 : MaxCell_TileMatrix_16_chr16, Class = integer MaxCell_TileMatrix_16_chr16: length = 1 [1] 12222 2023-12-05 21:17:42.475058 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (17 of 23)!, 5.785 mins elapsed. 2023-12-05 21:17:43.730984 : NTiles_TileMatrix_17_chr17, Class = numeric NTiles_TileMatrix_17_chr17: length = 1 chr17 166515 2023-12-05 21:17:43.735433 : NCells_TileMatrix_17_chr17, Class = integer NCells_TileMatrix_17_chr17: length = 1 [1] 12222 2023-12-05 21:17:43.739189 : MinTile_TileMatrix_17_chr17, Class = numeric MinTile_TileMatrix_17_chr17: length = 1 [1] 156 2023-12-05 21:17:43.756955 : MaxTile_TileMatrix_17_chr17, Class = numeric MaxTile_TileMatrix_17_chr17: length = 1 [1] 166495 2023-12-05 21:17:43.82014 : MinCell_TileMatrix_17_chr17, Class = integer MinCell_TileMatrix_17_chr17: length = 1 [1] 1 2023-12-05 21:17:43.823892 : MaxCell_TileMatrix_17_chr17, Class = integer MaxCell_TileMatrix_17_chr17: length = 1 [1] 12222 2023-12-05 21:17:56.011006 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (18 of 23)!, 6.011 mins elapsed. 2023-12-05 21:17:56.379216 : NTiles_TileMatrix_18_chr18, Class = numeric NTiles_TileMatrix_18_chr18: length = 1 chr18 160747 2023-12-05 21:17:56.383291 : NCells_TileMatrix_18_chr18, Class = integer NCells_TileMatrix_18_chr18: length = 1 [1] 12222 2023-12-05 21:17:56.387024 : MinTile_TileMatrix_18_chr18, Class = numeric MinTile_TileMatrix_18_chr18: length = 1 [1] 21 2023-12-05 21:17:56.393803 : MaxTile_TileMatrix_18_chr18, Class = numeric MaxTile_TileMatrix_18_chr18: length = 1 [1] 160527 2023-12-05 21:17:56.413877 : MinCell_TileMatrix_18_chr18, Class = integer MinCell_TileMatrix_18_chr18: length = 1 [1] 1 2023-12-05 21:17:56.417728 : MaxCell_TileMatrix_18_chr18, Class = integer MaxCell_TileMatrix_18_chr18: length = 1 [1] 12222 2023-12-05 21:18:00.635348 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (19 of 23)!, 6.088 mins elapsed. 2023-12-05 21:18:01.920532 : NTiles_TileMatrix_19_chr19, Class = numeric NTiles_TileMatrix_19_chr19: length = 1 chr19 117236 2023-12-05 21:18:01.924604 : NCells_TileMatrix_19_chr19, Class = integer NCells_TileMatrix_19_chr19: length = 1 [1] 12222 2023-12-05 21:18:01.928676 : MinTile_TileMatrix_19_chr19, Class = numeric MinTile_TileMatrix_19_chr19: length = 1 [1] 179 2023-12-05 21:18:01.946671 : MaxTile_TileMatrix_19_chr19, Class = numeric MaxTile_TileMatrix_19_chr19: length = 1 [1] 117216 2023-12-05 21:18:02.020056 : MinCell_TileMatrix_19_chr19, Class = integer MinCell_TileMatrix_19_chr19: length = 1 [1] 1 2023-12-05 21:18:02.024165 : MaxCell_TileMatrix_19_chr19, Class = integer MaxCell_TileMatrix_19_chr19: length = 1 [1] 12222 2023-12-05 21:18:14.212162 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (20 of 23)!, 6.314 mins elapsed. 2023-12-05 21:18:14.795879 : NTiles_TileMatrix_20_chr20, Class = numeric NTiles_TileMatrix_20_chr20: length = 1 chr20 128889 2023-12-05 21:18:14.79957 : NCells_TileMatrix_20_chr20, Class = integer NCells_TileMatrix_20_chr20: length = 1 [1] 12222 2023-12-05 21:18:14.803395 : MinTile_TileMatrix_20_chr20, Class = numeric MinTile_TileMatrix_20_chr20: length = 1 [1] 121 2023-12-05 21:18:14.811723 : MaxTile_TileMatrix_20_chr20, Class = numeric MaxTile_TileMatrix_20_chr20: length = 1 [1] 128667 2023-12-05 21:18:14.841876 : MinCell_TileMatrix_20_chr20, Class = integer MinCell_TileMatrix_20_chr20: length = 1 [1] 1 2023-12-05 21:18:14.84556 : MaxCell_TileMatrix_20_chr20, Class = integer MaxCell_TileMatrix_20_chr20: length = 1 [1] 12222 2023-12-05 21:18:20.02403 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (21 of 23)!, 6.411 mins elapsed. 2023-12-05 21:18:20.297378 : NTiles_TileMatrix_21_chr21, Class = numeric NTiles_TileMatrix_21_chr21: length = 1 chr21 93420 2023-12-05 21:18:20.30138 : NCells_TileMatrix_21_chr21, Class = integer NCells_TileMatrix_21_chr21: length = 1 [1] 12222 2023-12-05 21:18:20.305149 : MinTile_TileMatrix_21_chr21, Class = numeric MinTile_TileMatrix_21_chr21: length = 1 [1] 10062 2023-12-05 21:18:20.311023 : MaxTile_TileMatrix_21_chr21, Class = numeric MaxTile_TileMatrix_21_chr21: length = 1 [1] 93400 2023-12-05 21:18:20.324206 : MinCell_TileMatrix_21_chr21, Class = integer MinCell_TileMatrix_21_chr21: length = 1 [1] 1 2023-12-05 21:18:20.328152 : MaxCell_TileMatrix_21_chr21, Class = integer MaxCell_TileMatrix_21_chr21: length = 1 [1] 12222 2023-12-05 21:18:23.522323 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (22 of 23)!, 6.469 mins elapsed. 2023-12-05 21:18:23.973669 : NTiles_TileMatrix_22_chr22, Class = numeric NTiles_TileMatrix_22_chr22: length = 1 chr22 101637 2023-12-05 21:18:23.977974 : NCells_TileMatrix_22_chr22, Class = integer NCells_TileMatrix_22_chr22: length = 1 [1] 12222 2023-12-05 21:18:23.982227 : MinTile_TileMatrix_22_chr22, Class = numeric MinTile_TileMatrix_22_chr22: length = 1 [1] 21052 2023-12-05 21:18:23.991364 : MaxTile_TileMatrix_22_chr22, Class = numeric MaxTile_TileMatrix_22_chr22: length = 1 [1] 101617 2023-12-05 21:18:24.018749 : MinCell_TileMatrix_22_chr22, Class = integer MinCell_TileMatrix_22_chr22: length = 1 [1] 1 2023-12-05 21:18:24.022836 : MaxCell_TileMatrix_22_chr22, Class = integer MaxCell_TileMatrix_22_chr22: length = 1 [1] 12222 2023-12-05 21:18:28.55143 : Adding TileMatrix to pbmc_granulocyte_sorted_10k for Chr (23 of 23)!, 6.553 mins elapsed. 2023-12-05 21:18:29.038788 : NTiles_TileMatrix_23_chrX, Class = numeric NTiles_TileMatrix_23_chrX: length = 1 chrX 312082 2023-12-05 21:18:29.042913 : NCells_TileMatrix_23_chrX, Class = integer NCells_TileMatrix_23_chrX: length = 1 [1] 12222 2023-12-05 21:18:29.046597 : MinTile_TileMatrix_23_chrX, Class = numeric MinTile_TileMatrix_23_chrX: length = 1 [1] 21 2023-12-05 21:18:29.054068 : MaxTile_TileMatrix_23_chrX, Class = numeric MaxTile_TileMatrix_23_chrX: length = 1 [1] 312062 2023-12-05 21:18:29.080891 : MinCell_TileMatrix_23_chrX, Class = integer MinCell_TileMatrix_23_chrX: length = 1 [1] 1 2023-12-05 21:18:29.084637 : MaxCell_TileMatrix_23_chrX, Class = integer MaxCell_TileMatrix_23_chrX: length = 1 [1] 12222 2023-12-05 21:18:36.587779 : (pbmc_granulocyte_sorted_10k : 1 of 2) Finished Adding TileMatrix!, 23.03 mins elapsed. 2023-12-05 21:18:36.589225 : (pbmc_granulocyte_sorted_10k : 1 of 2) Adding GeneScoreMatrix!, 23.03 mins elapsed. 2023-12-05 21:18:36.741695 : pbmc_granulocyte_sorted_10k .addGeneScoreMat geneRegions, Class = GRanges GRanges object with 36448 ranges and 5 metadata columns: seqnames ranges strand | gene_id symbol | [1] chr1 24554-31109 + | ENSG00000243485 MIR1302-2HG [2] chr1 34554-41081 - | ENSG00000237613 FAM138A [3] chr1 60419-71585 + | ENSG00000186092 OR4F5 [4] chr1 89295-138723 - | ENSG00000238009 AL627309.1 [5] chr1 89551-96105 - | ENSG00000239945 AL627309.3 ... ... ... ... . ... ... [36444] chrX 155489011-155674944 - | ENSG00000185973 TMLHE [36445] chrX 155762812-155782459 + | ENSG00000168939 SPRY3 [36446] chrX 155876345-155943769 + | ENSG00000124333 VAMP7 [36447] chrX 155992581-156010817 + | ENSG00000124334 IL9R [36448] chrX 156014623-156021837 - | ENSG00000185203 WASIR1 geneStart geneEnd geneWeight [1] 29554 31109 4.06171 [2] 36081 34554 4.07484 [3] 65419 71585 2.79749 [4] 133723 89295 1.40609 [5] 91105 89551 4.06218 ... ... ... ... [36444] 155669944 155489011 1.10796 [36445] 155767812 155782459 2.02161 [36446] 155881345 155943769 1.29770 [36447] 155997581 156010817 2.10065 [36448] 156016837 156014623 3.78206 ------- seqinfo: 23 sequences from an unspecified genome; no seqlengths 2023-12-05 21:18:36.906063 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (1 of 23)!, 0 mins elapsed. 2023-12-05 21:18:36.96016 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (2 of 23)!, 0.001 mins elapsed. 2023-12-05 21:18:36.997248 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (3 of 23)!, 0.002 mins elapsed. 2023-12-05 21:18:37.045821 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (4 of 23)!, 0.003 mins elapsed. 2023-12-05 21:18:37.055939 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (5 of 23)!, 0.003 mins elapsed. 2023-12-05 21:18:37.067274 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (6 of 23)!, 0.003 mins elapsed. 2023-12-05 21:18:37.111555 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (7 of 23)!, 0.004 mins elapsed. 2023-12-05 21:18:37.145451 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (8 of 23)!, 0.004 mins elapsed. 2023-12-05 21:18:37.185 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (9 of 23)!, 0.005 mins elapsed. 2023-12-05 21:18:37.209906 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (10 of 23)!, 0.006 mins elapsed. 2023-12-05 21:18:37.242684 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (11 of 23)!, 0.006 mins elapsed. 2023-12-05 21:18:37.255499 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (12 of 23)!, 0.006 mins elapsed. 2023-12-05 21:18:37.284064 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (13 of 23)!, 0.007 mins elapsed. 2023-12-05 21:18:37.330095 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (14 of 23)!, 0.008 mins elapsed. 2023-12-05 21:18:37.425224 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (16 of 23)!, 0.009 mins elapsed. 2023-12-05 21:18:37.431557 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (18 of 23)!, 0.009 mins elapsed. 2023-12-05 21:18:37.411633 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (15 of 23)!, 0.009 mins elapsed. 2023-12-05 21:18:37.451586 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (17 of 23)!, 0.01 mins elapsed. 2023-12-05 21:18:37.484565 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (20 of 23)!, 0.01 mins elapsed. 2023-12-05 21:18:37.458013 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (19 of 23)!, 0.01 mins elapsed. 2023-12-05 21:18:37.511063 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (21 of 23)!, 0.011 mins elapsed. 2023-12-05 21:18:37.543905 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (22 of 23)!, 0.011 mins elapsed. 2023-12-05 21:18:37.582047 : Creating Temp GeneScoreMatrix for pbmc_granulocyte_sorted_10k, Chr (23 of 23)!, 0.012 mins elapsed. 2023-12-05 21:19:11.310918 : pbmc_granulocyte_sorted_10k .addGeneScoreMat FeatureDF, Class = data.frame pbmc_granulocyte_sorted_10k .addGeneScoreMat FeatureDF: nRows = 36448, nCols = 6 seqnames start end strand name idx 1 chr1 29554 31109 1 MIR1302-2HG 1 2 chr1 36081 34554 2 FAM138A 2 3 chr1 65419 71585 1 OR4F5 3 4 chr1 133723 89295 2 AL627309.1 4 5 chr1 91105 89551 2 AL627309.3 5 6 chr1 140339 139790 2 AL627309.2 6 2023-12-05 21:19:12.533238 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (1 of 23)!, 0.594 mins elapsed. 2023-12-05 21:19:16.621284 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (2 of 23)!, 0.662 mins elapsed. 2023-12-05 21:19:20.185398 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (3 of 23)!, 0.722 mins elapsed. 2023-12-05 21:19:23.851961 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (4 of 23)!, 0.783 mins elapsed. 2023-12-05 21:19:25.610461 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (5 of 23)!, 0.812 mins elapsed. 2023-12-05 21:19:27.78053 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (6 of 23)!, 0.848 mins elapsed. 2023-12-05 21:19:30.903141 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (7 of 23)!, 0.9 mins elapsed. 2023-12-05 21:19:33.055561 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (8 of 23)!, 0.936 mins elapsed. 2023-12-05 21:19:34.89757 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (9 of 23)!, 0.967 mins elapsed. 2023-12-05 21:19:37.403508 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (10 of 23)!, 1.009 mins elapsed. 2023-12-05 21:19:39.327779 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (11 of 23)!, 1.041 mins elapsed. 2023-12-05 21:19:41.890022 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (12 of 23)!, 1.084 mins elapsed. 2023-12-05 21:19:45.024295 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (13 of 23)!, 1.136 mins elapsed. 2023-12-05 21:19:46.349699 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (14 of 23)!, 1.158 mins elapsed. 2023-12-05 21:19:48.156605 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (15 of 23)!, 1.188 mins elapsed. 2023-12-05 21:19:50.454627 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (16 of 23)!, 1.226 mins elapsed. 2023-12-05 21:19:52.685616 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (17 of 23)!, 1.263 mins elapsed. 2023-12-05 21:19:55.560256 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (18 of 23)!, 1.311 mins elapsed. 2023-12-05 21:19:57.371142 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (19 of 23)!, 1.342 mins elapsed. 2023-12-05 21:20:00.998307 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (20 of 23)!, 1.402 mins elapsed. 2023-12-05 21:20:02.528595 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (21 of 23)!, 1.428 mins elapsed. 2023-12-05 21:20:04.189661 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (22 of 23)!, 1.455 mins elapsed. 2023-12-05 21:20:05.664142 : Adding GeneScoreMatrix to pbmc_granulocyte_sorted_10k for Chr (23 of 23)!, 1.48 mins elapsed. 2023-12-05 21:20:08.290055 : (pbmc_granulocyte_sorted_10k : 1 of 2) Finished Adding GeneScoreMatrix!, 24.559 mins elapsed. 2023-12-05 21:20:08.29191 : (pbmc_granulocyte_sorted_10k : 1 of 2) Finished Creating Arrow File, 24.559 mins elapsed. ------- Completed End Time : 2023-12-05 21:20:08.316931 Elapsed Time Minutes = 24.5605784893036 Elapsed Time Hours = 0.409343327813678 -------