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Type 'q()' to quit R. > library(testthat) > test_check("RaMS") Loading required package: RaMS ── Attaching core tidyverse packages ──────────────────────── tidyverse 2.0.0 ── ✔ dplyr 1.1.4 ✔ readr 2.1.4 ✔ forcats 1.0.0 ✔ stringr 1.5.1 ✔ ggplot2 3.4.4 ✔ tibble 3.2.1 ✔ lubridate 1.9.3 ✔ tidyr 1.3.0 ✔ purrr 1.0.2 ── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ── ✖ purrr::%||%() masks base::%||%() ✖ dplyr::between() masks RaMS::between() ✖ readr::edition_get() masks testthat::edition_get() ✖ dplyr::filter() masks stats::filter() ✖ purrr::is_null() masks testthat::is_null() ✖ dplyr::lag() masks stats::lag() ✖ readr::local_edition() masks testthat::local_edition() ✖ dplyr::matches() masks tidyr::matches(), testthat::matches() ℹ Use the conflicted package () to force all conflicts to become errors Attaching package: 'data.table' The following objects are masked from 'package:lubridate': hour, isoweek, mday, minute, month, quarter, second, wday, week, yday, year The following objects are masked from 'package:dplyr': between, first, last The following object is masked from 'package:purrr': transpose | | | 0% Reading file DDApos_2.mzML.gz... 0.42 secs Reading MS1 data...0.28 secs Reading MS2 data...0.1 secs Reading BPC...0.2 secs Reading TIC...0.13 secs Reading file metadata...0.22 secs | |=================================== | 50% Reading file LB12HL_AB.mzML.gz... 0.13 secs Reading MS1 data...0.09 secs Reading MS2 data...0.01 secs Reading BPC...0.04 secs Reading TIC...0.04 secs Reading file metadata...0.06 secs | |======================================================================| 100% Binding files together into single data.table Total time: 1.75 secs | | | 0% | |=================================== | 50% | |======================================================================| 100% Total time: 1.84 secs | | | 0% Reading file DDApos_2.mzXML.gz... 0.04 secs Reading MS1 data...0.11 secs Reading MS2 data...0.03 secs Reading BPC...0.01 secs Reading TIC...0.01 secs Reading file metadata...0.01 secs | |=================================== | 50% Reading file LB12HL_AB.mzXML.gz... 0.01 secs Reading MS1 data...0.04 secs Reading MS2 data...0 secs Reading BPC...0 secs Reading TIC...0 secs Reading file metadata...0 secs | |======================================================================| 100% Binding files together into single data.table Total time: 0.28 secs | | | 0% | |======================= | 33% | |=============================================== | 67% | |======================================================================| 100% Total time: 0.97 secs | | | 0% Reading file DDApos_2.mzML.gz... 0.52 secs Extracting EIC...0.29 secs Extracting EIC MS2...0.13 secs | |=================================== | 50% Reading file LB12HL_AB.mzML.gz... 0.13 secs Extracting EIC...0.1 secs Extracting EIC MS2...0.01 secs | |======================================================================| 100% Binding files together into single data.table Total time: 1.18 secs | | | 0% Reading file DDApos_2.mzXML.gz... 0.04 secs Extracting EIC...0.11 secs Extracting EIC MS2...0.03 secs | |=================================== | 50% Reading file LB12HL_AB.mzXML.gz... 0.01 secs Extracting EIC...0.05 secs Extracting EIC MS2...0 secs | |======================================================================| 100% Binding files together into single data.table Total time: 0.24 secs | | | 0% | |=================================== | 50% | |======================================================================| 100% Total time: 1.2 secs Reading file DDApos_2.mzXML.gz... 0.05 secs Reading MS1 data...0.02 secs Reading MS2 data...0.01 secs Reading BPC...0.01 secs Reading TIC...0.01 secs Binding files together into single data.table Total time: 0.1 secs | | | 0% | |=================================== | 50% | |======================================================================| 100% Some data seem to have incorrect names: MS1 Total time: 1.01 secs | | | 0% | |=================================== | 50% | |======================================================================| 100% Total time: 0.89 secs | | | 0% | |=================================== | 50% | |======================================================================| 100% Total time: 0.84 secs Reading file uv_test_mini.mzML.gz... 0 secs Reading MS1 data...0 secs Reading MS2 data...0 secs Reading DAD data...0 secs Reading BPC...0 secs Reading TIC...0 secs Reading file metadata...0 secs Binding files together into single data.table Total time: 0.02 secs Reading file uv_test_mini.mzML.gz... 0 secs Reading DAD data...0 secs Binding files together into single data.table Total time: 0.01 secs Reading file LB12HL_AB.mzXML.gz... 0.01 secs Binding files together into single data.table Total time: 0.01 secs Reading file wk_chrom.mzML.gz... 0 secs Reading chromatograms...0 secs Binding files together into single data.table Total time: 0.01 secs Reading file wk_chrom.mzML.gz... 0 secs Reading MS1 data...0 secs Reading MS2 data...0 secs Reading BPC...0 secs Reading TIC...0 secs Reading chromatograms...0 secs Reading file metadata...0 secs Binding files together into single data.table Total time: 0.01 secs Reading file LB12HL_AB.mzXML.gz... 0.01 secs Binding files together into single data.table Total time: 0.01 secs | | | 0% Reading file file2c16c6b418ee.mzML... Reading file LB12HL_AB.mzML.gz... 0.13 secs Reading MS1 data...0.29 secs Reading MS2 data...0.01 secs Reading BPC...0.04 secs Reading TIC...0.04 secs Reading file metadata...0.06 secs Binding files together into single data.table Total time: 0.58 secs Reading file LB12HL_AB.mzML.gz... 0.13 secs Reading MS1 data...0.08 secs Reading MS2 data...0.01 secs Reading BPC...0.04 secs Reading TIC...0.04 secs Reading file metadata...0.06 secs Binding files together into single data.table Total time: 0.38 secs | | | 0% Reading file mini_mzML.mzML... 0.12 secs Reading MS1 data...0.08 secs Reading MS2 data...0.01 secs Reading BPC...0.04 secs Reading TIC...0.04 secs Reading file metadata...0.06 secs Binding files together into single data.table Total time: 0.35 secs Reading file mini_mzML.mzML... 0.12 secs Reading MS1 data...0.08 secs Reading MS2 data...0.01 secs Reading BPC...0.04 secs Reading TIC...0.04 secs Reading file metadata...0.06 secs Binding files together into single data.table Total time: 0.36 secs Reading file mini_mzXML.mzXML... 0.01 secs Reading MS1 data...0.05 secs Reading MS2 data...0 secs Reading BPC...0.01 secs Reading TIC...0 secs Reading file metadata...0.01 secs Binding files together into single data.table Total time: 0.09 secs Reading file mini_mzXML.mzXML... 0.01 secs Reading MS1 data...0.04 secs Reading MS2 data...0 secs Reading BPC...0.01 secs Reading TIC...0 secs Reading file metadata...0.01 secs Binding files together into single data.table Total time: 0.07 secs Total time: 3.77 secs Reading file DDApos_2.mzML.gz... 0.43 secs Reading MS1 data...0.23 secs Reading MS2 data...0.09 secs Reading BPC...0.13 secs Reading TIC...0.13 secs Reading file metadata...0.22 secs Binding files together into single data.table Total time: 1.22 secs Reading file mini_DDA.mzML... 0.3 secs Reading MS1 data...0.19 secs Reading MS2 data...0.04 secs Reading BPC...0.11 secs Reading TIC...0.11 secs Reading file metadata...0.17 secs Binding files together into single data.table Total time: 0.93 secs [ FAIL 0 | WARN 0 | SKIP 0 | PASS 255 ] > > proc.time() user system elapsed 34.50 1.10 35.62