Running ‘testthat.R’ [61s/37s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(immundata)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: duckplyr
  The duckplyr package is configured to fall back to dplyr when it encounters an
  incompatibility. Fallback events can be collected and uploaded for analysis to
  guide future development. By default, data will be collected but no data will
  be uploaded.
  ℹ Automatic fallback uploading is not controlled and therefore disabled, see
    `?duckplyr::fallback()`.
  ✔ Number of reports ready for upload: 1.
  → Review with `duckplyr::fallback_review()`, upload with
    `duckplyr::fallback_upload()`.
  ℹ Configure automatic uploading with `duckplyr::fallback_config()`.
  ✔ Overwriting dplyr methods with duckplyr methods.
  ℹ Turn off with `duckplyr::methods_restore()`.
  Loading immundata version 0.0.5
  > 
  > test_check("immundata")
  Starting 2 test processes.
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Reading repertoire data 
  > test-annotate-barcodes.R:   1.
  > test-annotate-barcodes.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-annotate-barcodes.R:   2.
  > test-annotate-barcodes.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-annotate-barcodes.R: i Checking if all files are of the same type
  > test-annotate-barcodes.R: v All files have the same extension
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Reading repertoire data 
  > test-annotate-receptors.R:   1.
  > test-annotate-receptors.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-annotate-receptors.R:   2.
  > test-annotate-receptors.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-annotate-receptors.R: i Checking if all files are of the same type
  > test-annotate-receptors.R: v All files have the same extension
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Renaming the columns and schemas 
  > test-annotate-barcodes.R: v Renaming is finished
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Preprocessing the data 
  > test-annotate-barcodes.R:   1. exclude_columns
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Renaming the columns and schemas 
  > test-annotate-barcodes.R:   2. filter_nonproductive
  > test-annotate-receptors.R: v Renaming is finished
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Preprocessing the data 
  > test-annotate-receptors.R:   1. exclude_columns
  > test-annotate-barcodes.R: v Preprocessing plan is ready
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Aggregating the data to receptors 
  > test-annotate-barcodes.R: i No locus information found
  > test-annotate-barcodes.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-receptors.R:   2. filter_nonproductive
  > test-annotate-receptors.R: v Preprocessing plan is ready
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Aggregating the data to receptors 
  > test-annotate-receptors.R: i No locus information found
  > test-annotate-receptors.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-barcodes.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Postprocessing the data 
  > test-annotate-barcodes.R:   1. prefix_barcodes
  > test-annotate-barcodes.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-annotate-barcodes.R: v Postprocessing plan is ready
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-barcodes.R: i Writing the receptor annotation data to [/tmp/Rtmp3f6GYP/file13308b14c565b1/annotations.parquet]
  > test-annotate-receptors.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Postprocessing the data 
  > test-annotate-receptors.R:   1. prefix_barcodes
  > test-annotate-receptors.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-annotate-receptors.R: v Postprocessing plan is ready
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-receptors.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/file1330b629f555e9/annotations.parquet]
  > test-annotate-barcodes.R: i Writing the metadata to [/tmp/Rtmp3f6GYP/file13308b14c565b1/metadata.json]
  > test-annotate-barcodes.R: v ImmunData files saved to [/tmp/Rtmp3f6GYP/file13308b14c565b1]
  > test-annotate-barcodes.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b14c565b1']
  > test-annotate-barcodes.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-annotate-barcodes.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b14c565b1']
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Summary 
  > test-annotate-barcodes.R: i Time elapsed: 3.14 secs
  > test-annotate-barcodes.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-barcodes.R: v Loaded ImmunData with [1902] chains
  > test-annotate-receptors.R: i Writing the metadata to [/tmp/RtmpdNweX6/file1330b629f555e9/metadata.json]
  > test-annotate-receptors.R: v ImmunData files saved to [/tmp/RtmpdNweX6/file1330b629f555e9]
  > test-annotate-receptors.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b629f555e9']
  > test-annotate-receptors.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-annotate-receptors.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b629f555e9']
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Summary 
  > test-annotate-receptors.R: i Time elapsed: 3.1 secs
  > test-annotate-receptors.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-receptors.R: v Loaded ImmunData with [1902] chains
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Reading repertoire data 
  > test-filter-barcodes.R:   1.
  > test-filter-barcodes.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-barcodes.R:   2.
  > test-filter-barcodes.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-barcodes.R: i Checking if all files are of the same type
  > test-filter-barcodes.R: v All files have the same extension
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Reading repertoire data 
  > test-filter-immundata-exact.R:   1.
  > test-filter-immundata-exact.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata-exact.R:   2.
  > test-filter-immundata-exact.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata-exact.R: i Checking if all files are of the same type
  > test-filter-immundata-exact.R: v All files have the same extension
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Renaming the columns and schemas 
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Renaming the columns and schemas 
  > test-filter-barcodes.R: v Renaming is finished
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Preprocessing the data 
  > test-filter-barcodes.R:   1. exclude_columns
  > test-filter-immundata-exact.R: v Renaming is finished
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Preprocessing the data 
  > test-filter-immundata-exact.R:   1. exclude_columns
  > test-filter-barcodes.R:   2. filter_nonproductive
  > test-filter-immundata-exact.R:   2. filter_nonproductive
  > test-filter-barcodes.R: v Preprocessing plan is ready
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Aggregating the data to receptors 
  > test-filter-barcodes.R: i No locus information found
  > test-filter-barcodes.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-exact.R: v Preprocessing plan is ready
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Aggregating the data to receptors 
  > test-filter-immundata-exact.R: i No locus information found
  > test-filter-immundata-exact.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-exact.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Postprocessing the data 
  > test-filter-immundata-exact.R:   1. prefix_barcodes
  > test-filter-immundata-exact.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-immundata-exact.R: v Postprocessing plan is ready
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata-exact.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/file1330b652f3297a/annotations.parquet]
  > test-filter-barcodes.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Postprocessing the data 
  > test-filter-barcodes.R:   1. prefix_barcodes
  > test-filter-barcodes.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-barcodes.R: v Postprocessing plan is ready
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Saving the newly created ImmunData to disk 
  > test-filter-barcodes.R: i Writing the receptor annotation data to [/tmp/Rtmp3f6GYP/file13308b4cb701f/annotations.parquet]
  > test-filter-immundata-exact.R: i Writing the metadata to [/tmp/RtmpdNweX6/file1330b652f3297a/metadata.json]
  > test-filter-immundata-exact.R: v ImmunData files saved to [/tmp/RtmpdNweX6/file1330b652f3297a]
  > test-filter-immundata-exact.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b652f3297a']
  > test-filter-immundata-exact.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata-exact.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b652f3297a']
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Summary 
  > test-filter-immundata-exact.R: i Time elapsed: 2.82 secs
  > test-filter-immundata-exact.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata-exact.R: v Loaded ImmunData with [1902] chains
  > test-filter-barcodes.R: i Writing the metadata to [/tmp/Rtmp3f6GYP/file13308b4cb701f/metadata.json]
  > test-filter-barcodes.R: v ImmunData files saved to [/tmp/Rtmp3f6GYP/file13308b4cb701f]
  > test-filter-barcodes.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b4cb701f']
  > test-filter-barcodes.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-barcodes.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b4cb701f']
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Summary 
  > test-filter-barcodes.R: i Time elapsed: 3 secs
  > test-filter-barcodes.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-barcodes.R: v Loaded ImmunData with [1902] chains
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Reading repertoire data 
  > test-filter-immundata-hamm.R:   1.
  > test-filter-immundata-hamm.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata-hamm.R:   2.
  > test-filter-immundata-hamm.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata-hamm.R: i Checking if all files are of the same type
  > test-filter-immundata-hamm.R: v All files have the same extension
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Reading repertoire data 
  > test-filter-immundata-lev.R:   1.
  > test-filter-immundata-lev.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata-lev.R:   2.
  > test-filter-immundata-lev.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata-lev.R: i Checking if all files are of the same type
  > test-filter-immundata-lev.R: v All files have the same extension
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Renaming the columns and schemas 
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Renaming the columns and schemas 
  > test-filter-immundata-hamm.R: v Renaming is finished
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Preprocessing the data 
  > test-filter-immundata-lev.R: v Renaming is finished
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Preprocessing the data 
  > test-filter-immundata-hamm.R:   1. exclude_columns
  > test-filter-immundata-lev.R:   1. exclude_columns
  > test-filter-immundata-hamm.R:   2. filter_nonproductive
  > test-filter-immundata-lev.R:   2. filter_nonproductive
  > test-filter-immundata-lev.R: v Preprocessing plan is ready
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Aggregating the data to receptors 
  > test-filter-immundata-hamm.R: v Preprocessing plan is ready
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Aggregating the data to receptors 
  > test-filter-immundata-lev.R: i No locus information found
  > test-filter-immundata-lev.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-hamm.R: i No locus information found
  > test-filter-immundata-hamm.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-lev.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Postprocessing the data 
  > test-filter-immundata-lev.R:   1. prefix_barcodes
  > test-filter-immundata-lev.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-immundata-hamm.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Postprocessing the data 
  > test-filter-immundata-lev.R: v Postprocessing plan is ready
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata-lev.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/file1330b650567fdb/annotations.parquet]
  > test-filter-immundata-hamm.R:   1. prefix_barcodes
  > test-filter-immundata-hamm.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-immundata-hamm.R: v Postprocessing plan is ready
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata-hamm.R: i Writing the receptor annotation data to [/tmp/Rtmp3f6GYP/file13308b17207d6c/annotations.parquet]
  > test-filter-immundata-lev.R: i Writing the metadata to [/tmp/RtmpdNweX6/file1330b650567fdb/metadata.json]
  > test-filter-immundata-lev.R: v ImmunData files saved to [/tmp/RtmpdNweX6/file1330b650567fdb]
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b650567fdb']
  > test-filter-immundata-lev.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b650567fdb']
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Summary 
  > test-filter-immundata-lev.R: i Time elapsed: 2.87 secs
  > test-filter-immundata-hamm.R: i Writing the metadata to [/tmp/Rtmp3f6GYP/file13308b17207d6c/metadata.json]
  > test-filter-immundata-lev.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata-lev.R: v Loaded ImmunData with [1902] chains
  > test-filter-immundata-hamm.R: v ImmunData files saved to [/tmp/Rtmp3f6GYP/file13308b17207d6c]
  > test-filter-immundata-hamm.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b17207d6c']
  > test-filter-immundata-hamm.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata-hamm.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b17207d6c']
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Summary 
  > test-filter-immundata-hamm.R: i Time elapsed: 2.93 secs
  > test-filter-immundata-hamm.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata-hamm.R: v Loaded ImmunData with [1902] chains
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Reading repertoire data 
  > test-filter-immundata-regex.R:   1.
  > test-filter-immundata-regex.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata-regex.R:   2.
  > test-filter-immundata-regex.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata-regex.R: i Checking if all files are of the same type
  > test-filter-immundata-regex.R: v All files have the same extension
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Renaming the columns and schemas 
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Reading repertoire data 
  > test-filter-immundata-lev.R:   1.
  > test-filter-immundata-lev.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata-lev.R:   2.
  > test-filter-immundata-lev.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata-lev.R: i Checking if all files are of the same type
  > test-filter-immundata-lev.R: v All files have the same extension
  > test-filter-immundata-regex.R: v Renaming is finished
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Preprocessing the data 
  > test-filter-immundata-regex.R:   1. exclude_columns
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Renaming the columns and schemas 
  > test-filter-immundata-regex.R:   2. filter_nonproductive
  > test-filter-immundata-lev.R: v Renaming is finished
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Preprocessing the data 
  > test-filter-immundata-lev.R:   1. exclude_columns
  > test-filter-immundata-regex.R: v Preprocessing plan is ready
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Aggregating the data to receptors 
  > test-filter-immundata-regex.R: i No locus information found
  > test-filter-immundata-regex.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-lev.R:   2. filter_nonproductive
  > test-filter-immundata-lev.R: v Preprocessing plan is ready
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Aggregating the data to receptors 
  > test-filter-immundata-lev.R: i No locus information found
  > test-filter-immundata-lev.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-regex.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Postprocessing the data 
  > test-filter-immundata-regex.R:   1. prefix_barcodes
  > test-filter-immundata-regex.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-immundata-regex.R: v Postprocessing plan is ready
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata-regex.R: i Writing the receptor annotation data to [/tmp/Rtmp3f6GYP/file13308b31fb1cb4/annotations.parquet]
  > test-filter-immundata-lev.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Postprocessing the data 
  > test-filter-immundata-lev.R:   1. prefix_barcodes
  > test-filter-immundata-lev.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-immundata-lev.R: v Postprocessing plan is ready
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata-lev.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/file1330b675832e6b/annotations.parquet]
  > test-filter-immundata-regex.R: i Writing the metadata to [/tmp/Rtmp3f6GYP/file13308b31fb1cb4/metadata.json]
  > test-filter-immundata-regex.R: v ImmunData files saved to [/tmp/Rtmp3f6GYP/file13308b31fb1cb4]
  > test-filter-immundata-regex.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b31fb1cb4']
  > test-filter-immundata-regex.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata-regex.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b31fb1cb4']
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Summary 
  > test-filter-immundata-regex.R: i Time elapsed: 2.86 secs
  > test-filter-immundata-regex.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata-regex.R: v Loaded ImmunData with [1902] chains
  > test-filter-immundata-lev.R: i Writing the metadata to [/tmp/RtmpdNweX6/file1330b675832e6b/metadata.json]
  > test-filter-immundata-lev.R: v ImmunData files saved to [/tmp/RtmpdNweX6/file1330b675832e6b]
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b675832e6b']
  > test-filter-immundata-lev.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b675832e6b']
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Summary 
  > test-filter-immundata-lev.R: i Time elapsed: 3.02 secs
  > test-filter-immundata-lev.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata-lev.R: v Loaded ImmunData with [1902] chains
  > test-filter-immundata.R: Rows: 2 Columns: 4
  > test-filter-immundata.R: -- Column specification --------------------------------------------------------
  > test-filter-immundata.R: Delimiter: "\t"
  > test-filter-immundata.R: chr (4): File, Therapy, Response, Prefix
  > test-filter-immundata.R: 
  > test-filter-immundata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-filter-immundata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-filter-immundata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-filter-immundata.R: v Metadata parsed successfully
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Reading repertoire data 
  > test-filter-immundata.R:   1.
  > test-filter-immundata.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata.R:   2.
  > test-filter-immundata.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata.R: i Checking if all files are of the same type
  > test-filter-immundata.R: v All files have the same extension
  Saving _problems/test-filter-immundata-lev-24.R
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Renaming the columns and schemas 
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Reading repertoire data 
  > test-filter-receptors.R:   1.
  > test-filter-receptors.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-receptors.R:   2.
  > test-filter-receptors.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-receptors.R: i Checking if all files are of the same type
  > test-filter-receptors.R: v All files have the same extension
  > test-filter-immundata.R: v Renaming is finished
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Preprocessing the data 
  > test-filter-immundata.R:   1. exclude_columns
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Renaming the columns and schemas 
  > test-filter-immundata.R:   2. filter_nonproductive
  > test-filter-receptors.R: v Renaming is finished
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Preprocessing the data 
  > test-filter-receptors.R:   1. exclude_columns
  > test-filter-immundata.R: v Preprocessing plan is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Aggregating the data to receptors 
  > test-filter-immundata.R: i No locus information found
  > test-filter-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-receptors.R:   2. filter_nonproductive
  > test-filter-receptors.R: v Preprocessing plan is ready
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Aggregating the data to receptors 
  > test-filter-receptors.R: i No locus information found
  > test-filter-receptors.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-filter-receptors.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Postprocessing the data 
  > test-filter-receptors.R:   1. prefix_barcodes
  > test-filter-receptors.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-receptors.R: v Postprocessing plan is ready
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Saving the newly created ImmunData to disk 
  > test-filter-receptors.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/file1330b622ba503a/annotations.parquet]
  > test-filter-receptors.R: i Writing the metadata to [/tmp/RtmpdNweX6/file1330b622ba503a/metadata.json]
  > test-filter-receptors.R: v ImmunData files saved to [/tmp/RtmpdNweX6/file1330b622ba503a]
  > test-filter-receptors.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b622ba503a']
  > test-filter-receptors.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-receptors.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/file1330b622ba503a']
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Summary 
  > test-filter-receptors.R: i Time elapsed: 3.06 secs
  > test-filter-receptors.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-receptors.R: v Loaded ImmunData with [1902] chains
  > test-filter-immundata.R: v Joining plan is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Postprocessing the data 
  > test-filter-immundata.R:   1. prefix_barcodes
  > test-filter-immundata.R: v Postprocessing plan is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata.R: i Writing the receptor annotation data to [/tmp/Rtmp3f6GYP/file13308b39bfca6b/annotations.parquet]
  > test-io-repertoires.R: Rows: 2 Columns: 4
  > test-io-repertoires.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires.R: Delimiter: "\t"
  > test-io-repertoires.R: chr (4): File, Therapy, Response, Prefix
  > test-io-repertoires.R: 
  > test-io-repertoires.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-io-repertoires.R: v Metadata parsed successfully
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R:   2.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-filter-immundata.R: i Writing the metadata to [/tmp/Rtmp3f6GYP/file13308b39bfca6b/metadata.json]
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-filter-immundata.R: v ImmunData files saved to [/tmp/Rtmp3f6GYP/file13308b39bfca6b]
  > test-filter-immundata.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b39bfca6b']
  > test-filter-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b39bfca6b']
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Summary 
  > test-filter-immundata.R: i Time elapsed: 3.92 secs
  > test-filter-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata.R: v Loaded ImmunData with [1902] chains
  > test-io-repertoires.R:   2. filter_nonproductive
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Reading repertoire data 
  > test-filter-immundata.R:   1.
  > test-filter-immundata.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-filter-immundata.R:   2.
  > test-filter-immundata.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-filter-immundata.R: i Checking if all files are of the same type
  > test-filter-immundata.R: v All files have the same extension
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Renaming the columns and schemas 
  > test-filter-immundata.R: v Renaming is finished
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Preprocessing the data 
  > test-filter-immundata.R:   1. exclude_columns
  > test-filter-immundata.R:   2. filter_nonproductive
  > test-filter-immundata.R: v Preprocessing plan is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Aggregating the data to receptors 
  > test-filter-immundata.R: i No locus information found
  > test-filter-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-filter-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Postprocessing the data 
  > test-filter-immundata.R:   1. prefix_barcodes
  > test-filter-immundata.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-filter-immundata.R: v Postprocessing plan is ready
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-filter-immundata.R: i Writing the receptor annotation data to [/tmp/Rtmp3f6GYP/file13308b22bf27c/annotations.parquet]
  > test-filter-immundata.R: i Writing the metadata to [/tmp/Rtmp3f6GYP/file13308b22bf27c/metadata.json]
  > test-filter-immundata.R: v ImmunData files saved to [/tmp/Rtmp3f6GYP/file13308b22bf27c]
  > test-filter-immundata.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b22bf27c']
  > test-filter-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-filter-immundata.R: i Reading ImmunData files from ['/tmp/Rtmp3f6GYP/file13308b22bf27c']
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Summary 
  > test-filter-immundata.R: i Time elapsed: 2.8 secs
  > test-filter-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-immundata.R: v Loaded ImmunData with [1902] chains
  > test-io-repertoires.R: v Joining plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Postprocessing the data 
  > test-io-repertoires.R:   1. prefix_barcodes
  > test-io-repertoires.R: v Postprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/annotations.parquet]
  > test-io-repertoires.R: i Writing the metadata to [/tmp/RtmpdNweX6/metadata.json]
  > test-io-repertoires.R: v ImmunData files saved to [/tmp/RtmpdNweX6]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6']
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6']
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Summary 
  > test-io-repertoires.R: i Time elapsed: 3.84 secs
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires.R: v Loaded ImmunData with [1902] chains
  > test-io-repertoires.R: Rows: 2 Columns: 4
  > test-io-repertoires.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires.R: Delimiter: "\t"
  > test-io-repertoires.R: chr (4): File, Therapy, Response, Prefix
  > test-io-repertoires.R: 
  > test-io-repertoires.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-io-repertoires.R: v Metadata parsed successfully
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R:   2.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R:   2. filter_nonproductive
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-io-repertoires.R: v Joining plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Postprocessing the data 
  > test-io-repertoires.R:   1. prefix_barcodes
  > test-io-repertoires.R: v Postprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/annotations.parquet]
  > test-io-repertoires.R: i Writing the metadata to [/tmp/RtmpdNweX6/metadata.json]
  > test-io-repertoires.R: v ImmunData files saved to [/tmp/RtmpdNweX6]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6']
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6']
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Summary 
  > test-io-repertoires.R: i Time elapsed: 4.12 secs
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires.R: v Loaded ImmunData with [1902] chains
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R:   2. filter_nonproductive
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Postprocessing the data 
  > test-io-repertoires.R:   1. prefix_barcodes
  > test-io-repertoires.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires.R: v Postprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/test-no-barcodes/annotations.parquet]
  > test-io-repertoires.R: i Writing the metadata to [/tmp/RtmpdNweX6/test-no-barcodes/metadata.json]
  > test-io-repertoires.R: v ImmunData files saved to [/tmp/RtmpdNweX6/test-no-barcodes]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-no-barcodes']
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-no-barcodes']
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Summary 
  > test-io-repertoires.R: i Time elapsed: 1.66 secs
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires.R: v Loaded ImmunData with [955] chains
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R:   2. filter_nonproductive
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Postprocessing the data 
  > test-io-repertoires.R:   1. prefix_barcodes
  > test-io-repertoires.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires.R: v Postprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/test-exclude/annotations.parquet]
  > test-io-repertoires.R: i Writing the metadata to [/tmp/RtmpdNweX6/test-exclude/metadata.json]
  > test-io-repertoires.R: v ImmunData files saved to [/tmp/RtmpdNweX6/test-exclude]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-exclude']
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and list()]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-exclude']
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Summary 
  > test-io-repertoires.R: i Time elapsed: 1.59 secs
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires.R: v Loaded ImmunData with [1000] chains
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Introduced new renamed columns: v_gene
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R:   2. filter_nonproductive
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Postprocessing the data 
  > test-io-repertoires.R:   1. prefix_barcodes
  > test-io-repertoires.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires.R: v Postprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/test-rename/annotations.parquet]
  > test-io-repertoires.R: i Writing the metadata to [/tmp/RtmpdNweX6/test-rename/metadata.json]
  > test-io-repertoires.R: v ImmunData files saved to [/tmp/RtmpdNweX6/test-rename]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-rename']
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_gene") and list()]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-rename']
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Summary 
  > test-io-repertoires.R: i Time elapsed: 1.63 secs
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_gene") and NULL]
  > test-io-repertoires.R: v Loaded ImmunData with [955] chains
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_1k_2k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Introduced new renamed columns: j_gene
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  > test-io-repertoires.R: i No locus information found
  > test-io-repertoires.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Postprocessing the data 
  > test-io-repertoires.R:   1. prefix_barcodes
  > test-io-repertoires.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires.R: v Postprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires.R: i Writing the receptor annotation data to [/tmp/RtmpdNweX6/test-exclude-rename/annotations.parquet]
  > test-io-repertoires.R: i Writing the metadata to [/tmp/RtmpdNweX6/test-exclude-rename/metadata.json]
  > test-io-repertoires.R: v ImmunData files saved to [/tmp/RtmpdNweX6/test-exclude-rename]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-exclude-rename']
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call", "j_gene") and list()]
  > test-io-repertoires.R: i Reading ImmunData files from ['/tmp/RtmpdNweX6/test-exclude-rename']
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Summary 
  > test-io-repertoires.R: i Time elapsed: 1.61 secs
  > test-io-repertoires.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call", "j_gene") and NULL]
  > test-io-repertoires.R: v Loaded ImmunData with [1000] chains
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Reading repertoire data 
  > test-io-repertoires.R:   1.
  > test-io-repertoires.R:   /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/immundata/extdata/tsv/sample_0_1k.tsv
  > test-io-repertoires.R: i Checking if all files are of the same type
  > test-io-repertoires.R: v All files have the same extension
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Renaming the columns and schemas 
  > test-io-repertoires.R: v Renaming is finished
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Preprocessing the data 
  > test-io-repertoires.R:   1. exclude_columns
  > test-io-repertoires.R:   2. filter_nonproductive
  > test-io-repertoires.R: v Preprocessing plan is ready
  > test-io-repertoires.R: 
  > test-io-repertoires.R: -- Aggregating the data to receptors 
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 51 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-filter-immundata-lev.R:21:3'): Levenshtein fuzzy matching returns correct results ──
  Expected `arrange(collect(out$receptors))` to equal `arrange(gold)`.
  Differences:
    `attr(actual, 'row.names')`: NA -3  
  `attr(expected, 'row.names')`:  1  2 3
  
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 51 ]
  Error:
  ! Test failures.
  Execution halted