/srv/GT/analysis/course_sushi/public/gstore/projects/p1001/o35755_Fastqc_2025-06-02--16-11-01/scripts/QC_ventricles_100k_1.sh_sushiID1207_2025-06-02--16-11-28_o.log -------------------------------------------------- Job runs on fgcz-c-095 at /scratch/o35755_Fastqc_2025-06-02--16-11-01_temp3683628 Starting EzAppFastqc FastQC o35755_Fastqc_2025-06-02--16-11-01_temp3683628 2025-06-02 17:18:51 fastqc --extract -o . -t 8 -a /srv/GT/databases/adapter/adapter_list.txt --kmers 7 --dir . -q /srv/GT/analysis/course_sushi/public/gstore/projects/p1001/ventricles_100k/MutantSample_1_R1.fastq.gz /srv/GT/analysis/course_sushi/public/gstore/projects/p1001/ventricles_100k/MutantSample_1_R2.fastq.gz /srv/GT/analysis/course_sushi/public/gstore/projects/p1001/ventricles_100k/MutantSample_2_R1.fastq.gz /srv/GT/analysis/course_sushi/public/gstore/projects/p1001/ventricles_100k/MutantSample_2_R2.fastq.gz > fastqc.out 2> fastqc.err multiqc --outdir ../multi_FastQC . ezRun tag: ebd0062d1f0806bcefcea91cdff18a8c9d5f62c2 ezRun github link: https://github.com/uzh/ezRun/tree/ebd0062d1f0806bcefcea91cdff18a8c9d5f62c2 R version 4.5.0 (2025-04-11) Platform: x86_64-pc-linux-gnu Running under: Debian GNU/Linux 12 (bookworm) Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.11.0 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.11.0 LAPACK version 3.11.0 locale: [1] LC_CTYPE=C.UTF-8 LC_NUMERIC=C LC_TIME=C.UTF-8 [4] LC_COLLATE=C.UTF-8 LC_MONETARY=C.UTF-8 LC_MESSAGES=C.UTF-8 [7] LC_PAPER=C.UTF-8 LC_NAME=C LC_ADDRESS=C [10] LC_TELEPHONE=C LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C time zone: Europe/Berlin tzcode source: system (glibc) attached base packages: [1] stats4 stats graphics grDevices utils datasets methods [8] base other attached packages: [1] ezRun_3.20.1 lubridate_1.9.4 forcats_1.0.0 [4] stringr_1.5.1 dplyr_1.1.4 purrr_1.0.4 [7] readr_2.1.5 tidyr_1.3.1 tibble_3.2.1 [10] ggplot2_3.5.2 tidyverse_2.0.0 GenomicRanges_1.60.0 [13] Biostrings_2.76.0 GenomeInfoDb_1.44.0 XVector_0.48.0 [16] IRanges_2.42.0 S4Vectors_0.46.0 BiocGenerics_0.54.0 [19] generics_0.1.4 data.table_1.17.4 loaded via a namespace (and not attached): [1] gtable_0.3.6 jsonlite_2.0.0 compiler_4.5.0 [4] crayon_1.5.3 tidyselect_1.2.1 dichromat_2.0-0.1 [7] scales_1.4.0 R6_2.6.1 GenomeInfoDbData_1.2.14 [10] pillar_1.10.2 RColorBrewer_1.1-3 tzdb_0.5.0 [13] rlang_1.1.6 stringi_1.8.7 timechange_0.3.0 [16] cli_3.6.5 withr_3.0.2 magrittr_2.0.3 [19] grid_4.5.0 hms_1.1.3 lifecycle_1.0.4 [22] vctrs_0.6.5 glue_1.8.0 farver_2.1.2 [25] httr_1.4.7 tools_4.5.0 pkgconfig_2.0.3 [28] UCSC.utils_1.4.0 Finished EzAppFastqc FastQC o35755_Fastqc_2025-06-02--16-11-01_temp3683628 2025-06-02 17:19:05 [1] "Success" ___STDOUT_END___ /srv/GT/analysis/course_sushi/public/gstore/projects/p1001/o35755_Fastqc_2025-06-02--16-11-01/scripts/QC_ventricles_100k_1.sh_sushiID1207_2025-06-02--16-11-28_e.log -------------------------------------------------- Loading required package: data.table Loading required package: Biostrings Loading required package: BiocGenerics Loading required package: generics Attaching package: ‘generics’ The following objects are masked from ‘package:base’: as.difftime, as.factor, as.ordered, intersect, is.element, setdiff, setequal, union Attaching package: ‘BiocGenerics’ The following objects are masked from ‘package:stats’: IQR, mad, sd, var, xtabs The following objects are masked from ‘package:base’: anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep, grepl, is.unsorted, lapply, Map, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind, Reduce, rownames, sapply, saveRDS, table, tapply, unique, unsplit, which.max, which.min Loading required package: S4Vectors Loading required package: stats4 Attaching package: ‘S4Vectors’ The following objects are masked from ‘package:data.table’: first, second The following object is masked from ‘package:utils’: findMatches The following objects are masked from ‘package:base’: expand.grid, I, unname Loading required package: IRanges Attaching package: ‘IRanges’ The following object is masked from ‘package:data.table’: shift Loading required package: XVector Loading required package: GenomeInfoDb Attaching package: ‘Biostrings’ The following object is masked from ‘package:base’: strsplit Loading required package: GenomicRanges Loading required package: tidyverse ── Attaching core tidyverse packages ──────────────────────── tidyverse 2.0.0 ── ✔ dplyr 1.1.4 ✔ readr 2.1.5 ✔ forcats 1.0.0 ✔ stringr 1.5.1 ✔ ggplot2 3.5.2 ✔ tibble 3.2.1 ✔ lubridate 1.9.4 ✔ tidyr 1.3.1 ✔ purrr 1.0.4 ── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ── ✖ lubridate::%within%() masks IRanges::%within%() ✖ dplyr::between() masks data.table::between() ✖ dplyr::collapse() masks Biostrings::collapse(), IRanges::collapse() ✖ dplyr::combine() masks BiocGenerics::combine() ✖ purrr::compact() masks XVector::compact() ✖ dplyr::desc() masks IRanges::desc() ✖ tidyr::expand() masks S4Vectors::expand() ✖ dplyr::filter() masks stats::filter() ✖ dplyr::first() masks S4Vectors::first(), data.table::first() ✖ lubridate::hour() masks data.table::hour() ✖ lubridate::isoweek() masks data.table::isoweek() ✖ dplyr::lag() masks stats::lag() ✖ dplyr::last() masks data.table::last() ✖ lubridate::mday() masks data.table::mday() ✖ lubridate::minute() masks data.table::minute() ✖ lubridate::month() masks data.table::month() ✖ ggplot2::Position() masks BiocGenerics::Position(), base::Position() ✖ lubridate::quarter() masks data.table::quarter() ✖ purrr::reduce() masks GenomicRanges::reduce(), IRanges::reduce() ✖ dplyr::rename() masks S4Vectors::rename() ✖ lubridate::second() masks S4Vectors::second(), data.table::second() ✖ lubridate::second<-() masks S4Vectors::second<-() ✖ dplyr::slice() masks XVector::slice(), IRanges::slice() ✖ purrr::transpose() masks data.table::transpose() ✖ lubridate::wday() masks data.table::wday() ✖ lubridate::week() masks data.table::week() ✖ lubridate::yday() masks data.table::yday() ✖ lubridate::year() masks data.table::year() ℹ Use the conflicted package () to force all conflicts to become errors unknown param: partition unknown param: sushi_app unknown param: isLastJob /// MultiQC 🔍 v1.27 version_check | MultiQC Version v1.29 now available! file_search | Search path: /scratch/o35755_Fastqc_2025-06-02--16-11-01_temp3683628/FastQC fastqc | Found 4 reports write_results | Data : /scratch/o35755_Fastqc_2025-06-02--16-11-01_temp3683628/multi_FastQC/multiqc_data write_results | Report : /scratch/o35755_Fastqc_2025-06-02--16-11-01_temp3683628/multi_FastQC/multiqc_report.html multiqc | MultiQC complete ___STDERR_END___