Running 'testthat.R' [263s]
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 0.0.6
  > 
  > test_check("immundata")
  Starting 2 test processes.
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Reading repertoire data 
  > test-annotate-barcodes.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-barcodes.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.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-barcodes.R:   2. filter_nonproductive
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > 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-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4440f2234/annotations.parquet]
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-annotate-barcodes.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4440f2234/metadata.json]
  > test-annotate-barcodes.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4440f2234]
  > test-annotate-barcodes.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4440f2234']
  > test-annotate-barcodes.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4440f2234']
  > test-annotate-barcodes.R: 
  > test-annotate-barcodes.R: -- Summary 
  > test-annotate-barcodes.R: i Time elapsed: 5.52 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 and [1668] receptors
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c689344a8/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c689344a8/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c689344a8]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c689344a8']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c689344a8']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 7.12 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Reading repertoire data 
  > test-annotate-external.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-external.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-annotate-external.R: i Checking if all files are of the same type
  > test-annotate-external.R: v All files have the same extension
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Renaming the columns and schemas 
  > test-annotate-external.R: v Renaming is finished
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Preprocessing the data 
  > test-annotate-external.R:   1. exclude_columns
  > test-annotate-external.R:   2. filter_nonproductive
  > test-annotate-external.R: v Preprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Aggregating the data to receptors 
  > test-annotate-external.R: i No locus information found
  > test-annotate-external.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1024742d/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1024742d/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1024742d]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1024742d']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1024742d']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.67 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-annotate-external.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Postprocessing the data 
  > test-annotate-external.R:   1. prefix_barcodes
  > test-annotate-external.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-annotate-external.R: v Postprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-external.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c417c9e4/annotations.parquet]
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-annotate-external.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c417c9e4/metadata.json]
  > test-annotate-external.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c417c9e4]
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c417c9e4']
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c417c9e4']
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Summary 
  > test-annotate-external.R: i Time elapsed: 5.44 secs
  > test-annotate-external.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-external.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Reading repertoire data 
  > test-annotate-external.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-external.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-annotate-external.R: i Checking if all files are of the same type
  > test-annotate-external.R: v All files have the same extension
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Renaming the columns and schemas 
  > test-annotate-external.R: v Renaming is finished
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Preprocessing the data 
  > test-annotate-external.R:   1. exclude_columns
  > test-annotate-external.R:   2. filter_nonproductive
  > test-annotate-external.R: v Preprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Aggregating the data to receptors 
  > test-annotate-external.R: i No locus information found
  > test-annotate-external.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-annotate-external.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Postprocessing the data 
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-external.R:   1. prefix_barcodes
  > test-annotate-external.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-annotate-external.R: v Postprocessing plan is ready
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c35df296c/annotations.parquet]
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-external.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c419c6b01/annotations.parquet]
  > test-annotate-external.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c419c6b01/metadata.json]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c35df296c/metadata.json]
  > test-annotate-external.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c419c6b01]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c35df296c]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c35df296c']
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c419c6b01']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c35df296c']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c419c6b01']
  > test-agg-strata.R: i Time elapsed: 6.6 secs
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Summary 
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-external.R: i Time elapsed: 5.39 secs
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-external.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-external.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Reading repertoire data 
  > test-annotate-external.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-external.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-annotate-external.R: i Checking if all files are of the same type
  > test-annotate-external.R: v All files have the same extension
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Renaming the columns and schemas 
  > test-annotate-external.R: v Renaming is finished
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Preprocessing the data 
  > test-annotate-external.R:   1. exclude_columns
  > test-annotate-external.R:   2. filter_nonproductive
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-annotate-external.R: v Preprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Aggregating the data to receptors 
  > test-annotate-external.R: i No locus information found
  > test-annotate-external.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-external.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Postprocessing the data 
  > test-annotate-external.R:   1. prefix_barcodes
  > test-annotate-external.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-annotate-external.R: v Postprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-external.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43790704c/annotations.parquet]
  > test-annotate-external.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43790704c/metadata.json]
  > test-annotate-external.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43790704c]
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43790704c']
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43790704c']
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Summary 
  > test-annotate-external.R: i Time elapsed: 5.12 secs
  > test-annotate-external.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-external.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Reading repertoire data 
  > test-annotate-external.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-external.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-annotate-external.R: i Checking if all files are of the same type
  > test-annotate-external.R: v All files have the same extension
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Renaming the columns and schemas 
  > test-annotate-external.R: v Renaming is finished
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Preprocessing the data 
  > test-annotate-external.R:   1. exclude_columns
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-annotate-external.R:   2. filter_nonproductive
  > test-annotate-external.R: v Preprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Aggregating the data to receptors 
  > test-annotate-external.R: i No locus information found
  > test-annotate-external.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33426494/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33426494/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33426494]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33426494']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33426494']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 7.14 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-annotate-external.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Postprocessing the data 
  > test-annotate-external.R:   1. prefix_barcodes
  > test-annotate-external.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-annotate-external.R: v Postprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Saving the newly created ImmunData to disk 
  > test-annotate-external.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c434451493/annotations.parquet]
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-external.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c434451493/metadata.json]
  > test-annotate-external.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c434451493]
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c434451493']
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c434451493']
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Summary 
  > test-annotate-external.R: i Time elapsed: 5.54 secs
  > test-annotate-external.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-external.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Reading repertoire data 
  > test-annotate-external.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-external.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-annotate-external.R: i Checking if all files are of the same type
  > test-annotate-external.R: v All files have the same extension
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Renaming the columns and schemas 
  > test-annotate-external.R: v Renaming is finished
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Preprocessing the data 
  > test-annotate-external.R:   1. exclude_columns
  > test-annotate-external.R:   2. filter_nonproductive
  > test-annotate-external.R: v Preprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Aggregating the data to receptors 
  > test-annotate-external.R: i No locus information found
  > test-annotate-external.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c123768c8/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c123768c8/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c123768c8]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c123768c8']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c123768c8']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.67 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-annotate-external.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Postprocessing the data 
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-annotate-external.R:   1. prefix_barcodes
  > test-annotate-external.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-annotate-external.R: v Postprocessing plan is ready
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-annotate-external.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c411e25e25/annotations.parquet]
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-annotate-external.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c411e25e25/metadata.json]
  > test-annotate-external.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c411e25e25]
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c411e25e25']
  > test-annotate-external.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c411e25e25']
  > test-annotate-external.R: 
  > test-annotate-external.R: -- Summary 
  > test-annotate-external.R: i Time elapsed: 5.48 secs
  > test-annotate-external.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-external.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Reading repertoire data 
  > test-annotate-receptors.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-annotate-receptors.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Renaming the columns and schemas 
  > 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-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-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > 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-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c3ce574/annotations.parquet]
  > 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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c45da25edb/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c3ce574/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c3ce574]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c3ce574']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c3ce574']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.46 secs
  > test-annotate-receptors.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c45da25edb/metadata.json]
  > test-annotate-receptors.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c45da25edb]
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-annotate-receptors.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c45da25edb']
  > test-annotate-receptors.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c45da25edb']
  > test-annotate-receptors.R: 
  > test-annotate-receptors.R: -- Summary 
  > test-annotate-receptors.R: i Time elapsed: 5.34 secs
  > test-annotate-receptors.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-annotate-receptors.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-compute-collect-immundata.R: Rows: 2 Columns: 4
  > test-compute-collect-immundata.R: -- Column specification --------------------------------------------------------
  > test-compute-collect-immundata.R: Delimiter: "\t"
  > test-compute-collect-immundata.R: chr (4): File, Therapy, Response, Prefix
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-compute-collect-immundata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-compute-collect-immundata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-compute-collect-immundata.R: v Metadata parsed successfully
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Reading repertoire data 
  > test-compute-collect-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-compute-collect-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-compute-collect-immundata.R: i Checking if all files are of the same type
  > test-compute-collect-immundata.R: v All files have the same extension
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Renaming the columns and schemas 
  > test-compute-collect-immundata.R: v Renaming is finished
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Preprocessing the data 
  > test-compute-collect-immundata.R:   1. exclude_columns
  > test-compute-collect-immundata.R:   2. filter_nonproductive
  > test-compute-collect-immundata.R: v Preprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Aggregating the data to receptors 
  > test-compute-collect-immundata.R: i No locus information found
  > test-compute-collect-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-compute-collect-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-compute-collect-immundata.R: v Joining plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Postprocessing the data 
  > test-compute-collect-immundata.R:   1. prefix_barcodes
  > test-compute-collect-immundata.R: v Postprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-compute-collect-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421771c1/annotations.parquet]
  > test-compute-collect-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421771c1/metadata.json]
  > test-compute-collect-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421771c1]
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421771c1']
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421771c1']
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Summary 
  > test-compute-collect-immundata.R: i Time elapsed: 6.58 secs
  > test-compute-collect-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-compute-collect-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-compute-collect-immundata.R: Rows: 2 Columns: 4
  > test-compute-collect-immundata.R: -- Column specification --------------------------------------------------------
  > test-compute-collect-immundata.R: Delimiter: "\t"
  > test-compute-collect-immundata.R: chr (4): File, Therapy, Response, Prefix
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-compute-collect-immundata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-compute-collect-immundata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-compute-collect-immundata.R: v Metadata parsed successfully
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Reading repertoire data 
  > test-compute-collect-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-compute-collect-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-compute-collect-immundata.R: i Checking if all files are of the same type
  > test-compute-collect-immundata.R: v All files have the same extension
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Renaming the columns and schemas 
  > test-compute-collect-immundata.R: v Renaming is finished
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Preprocessing the data 
  > test-compute-collect-immundata.R:   1. exclude_columns
  > test-compute-collect-immundata.R:   2. filter_nonproductive
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1fb53fef/annotations.parquet]
  > test-compute-collect-immundata.R: v Preprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Aggregating the data to receptors 
  > test-compute-collect-immundata.R: i No locus information found
  > test-compute-collect-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1fb53fef/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1fb53fef]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1fb53fef']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1fb53fef']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.23 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-compute-collect-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-compute-collect-immundata.R: v Joining plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Postprocessing the data 
  > test-compute-collect-immundata.R:   1. prefix_barcodes
  > test-compute-collect-immundata.R: v Postprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-compute-collect-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c444612eb2/annotations.parquet]
  > test-compute-collect-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c444612eb2/metadata.json]
  > test-compute-collect-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c444612eb2]
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c444612eb2']
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c444612eb2']
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Summary 
  > test-compute-collect-immundata.R: i Time elapsed: 6.22 secs
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-compute-collect-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-compute-collect-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-compute-collect-immundata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-compute-collect-immundata.R: -- Column specification --------------------------------------------------------
  > test-compute-collect-immundata.R: Delimiter: "\t"
  > test-compute-collect-immundata.R: chr (4): File, Therapy, Response, Prefix
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-compute-collect-immundata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-compute-collect-immundata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-compute-collect-immundata.R: v Metadata parsed successfully
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Reading repertoire data 
  > test-compute-collect-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-compute-collect-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-compute-collect-immundata.R: i Checking if all files are of the same type
  > test-compute-collect-immundata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-compute-collect-immundata.R: v Renaming is finished
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Preprocessing the data 
  > test-compute-collect-immundata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-compute-collect-immundata.R:   2. filter_nonproductive
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-compute-collect-immundata.R: v Preprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Aggregating the data to receptors 
  > test-compute-collect-immundata.R: i No locus information found
  > test-compute-collect-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-compute-collect-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-compute-collect-immundata.R: v Joining plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Postprocessing the data 
  > test-compute-collect-immundata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-compute-collect-immundata.R: v Postprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-compute-collect-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c463c31d4d/annotations.parquet]
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c5394aa7/annotations.parquet]
  > test-compute-collect-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c463c31d4d/metadata.json]
  > test-compute-collect-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c463c31d4d]
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c463c31d4d']
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c463c31d4d']
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Summary 
  > test-compute-collect-immundata.R: i Time elapsed: 6.08 secs
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c5394aa7/metadata.json]
  > test-compute-collect-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c5394aa7]
  > test-compute-collect-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c5394aa7']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c5394aa7']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.23 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-compute-collect-immundata.R: Rows: 2 Columns: 4
  > test-compute-collect-immundata.R: -- Column specification --------------------------------------------------------
  > test-compute-collect-immundata.R: Delimiter: "\t"
  > test-compute-collect-immundata.R: chr (4): File, Therapy, Response, Prefix
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-compute-collect-immundata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-compute-collect-immundata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-compute-collect-immundata.R: v Metadata parsed successfully
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Reading repertoire data 
  > test-compute-collect-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-compute-collect-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-compute-collect-immundata.R: i Checking if all files are of the same type
  > test-compute-collect-immundata.R: v All files have the same extension
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Renaming the columns and schemas 
  > test-compute-collect-immundata.R: v Renaming is finished
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Preprocessing the data 
  > test-compute-collect-immundata.R:   1. exclude_columns
  > test-compute-collect-immundata.R:   2. filter_nonproductive
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-compute-collect-immundata.R: v Preprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Aggregating the data to receptors 
  > test-compute-collect-immundata.R: i No locus information found
  > test-compute-collect-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-compute-collect-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-compute-collect-immundata.R: v Joining plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Postprocessing the data 
  > test-compute-collect-immundata.R:   1. prefix_barcodes
  > test-compute-collect-immundata.R: v Postprocessing plan is ready
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-compute-collect-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ac76679/annotations.parquet]
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-compute-collect-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ac76679/metadata.json]
  > test-compute-collect-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ac76679]
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ac76679']
  > test-compute-collect-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ac76679']
  > test-compute-collect-immundata.R: 
  > test-compute-collect-immundata.R: -- Summary 
  > test-compute-collect-immundata.R: i Time elapsed: 6.71 secs
  > test-compute-collect-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-compute-collect-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c55874cf0/annotations.parquet]
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Reading repertoire data 
  > test-filter-barcodes.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-barcodes.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-barcodes.R: 
  > test-filter-barcodes.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-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c55874cf0/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c55874cf0]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c55874cf0']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c55874cf0']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.69 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-filter-barcodes.R:   2. filter_nonproductive
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > 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-agg-strata.R:   2. filter_nonproductive
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > 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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c453c0748a/annotations.parquet]
  > test-filter-barcodes.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c453c0748a/metadata.json]
  > test-filter-barcodes.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c453c0748a]
  > test-filter-barcodes.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c453c0748a']
  > test-filter-barcodes.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c453c0748a']
  > test-filter-barcodes.R: 
  > test-filter-barcodes.R: -- Summary 
  > test-filter-barcodes.R: i Time elapsed: 5.14 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 and [1668] receptors
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Reading repertoire data 
  > test-filter-immundata-exact.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata-exact.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Renaming the columns and schemas 
  > 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-immundata-exact.R:   2. filter_nonproductive
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > 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-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4cb645e4/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4cb645e4/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4cb645e4]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4cb645e4']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4cb645e4']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.57 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > 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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf2c2c/annotations.parquet]
  > test-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata-exact.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf2c2c/metadata.json]
  > test-filter-immundata-exact.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf2c2c]
  > test-filter-immundata-exact.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf2c2c']
  > test-filter-immundata-exact.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf2c2c']
  > test-filter-immundata-exact.R: 
  > test-filter-immundata-exact.R: -- Summary 
  > test-filter-immundata-exact.R: i Time elapsed: 5.22 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 and [1668] receptors
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Reading repertoire data 
  > test-filter-immundata-hamm.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata-hamm.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-hamm.R: 
  > test-filter-immundata-hamm.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-hamm.R:   1. exclude_columns
  > test-filter-immundata-hamm.R:   2. filter_nonproductive
  > 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-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-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c420a145b/annotations.parquet]
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c420a145b/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c420a145b]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c420a145b']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c420a145b']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.68 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > 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-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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4715c61b3/annotations.parquet]
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-filter-immundata-hamm.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4715c61b3/metadata.json]
  > test-filter-immundata-hamm.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4715c61b3]
  > test-filter-immundata-hamm.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4715c61b3']
  > test-filter-immundata-hamm.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4715c61b3']
  > test-filter-immundata-hamm.R: 
  > test-filter-immundata-hamm.R: -- Summary 
  > test-filter-immundata-hamm.R: i Time elapsed: 5.02 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 and [1668] receptors
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.R:   2. filter_nonproductive
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Reading repertoire data 
  > test-filter-immundata-lev.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata-lev.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-lev.R: 
  > test-filter-immundata-lev.R: -- Renaming the columns and schemas 
  > 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-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.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-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > 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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ddc3fc4/annotations.parquet]
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4512334/annotations.parquet]
  > test-filter-immundata-lev.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ddc3fc4/metadata.json]
  > test-filter-immundata-lev.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ddc3fc4]
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ddc3fc4']
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44ddc3fc4']
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Summary 
  > test-filter-immundata-lev.R: i Time elapsed: 5.35 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 and [1668] receptors
  > test-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4512334/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4512334]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4512334']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c4512334']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.83 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Reading repertoire data 
  > test-filter-immundata-lev.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata-lev.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-lev.R: 
  > test-filter-immundata-lev.R: -- Renaming the columns and schemas 
  > 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-lev.R:   2. filter_nonproductive
  > test-agg-strata.R: Rows: 2 Columns: 4
  > test-agg-strata.R: -- Column specification --------------------------------------------------------
  > test-agg-strata.R: Delimiter: "\t"
  > test-agg-strata.R: chr (4): File, Therapy, Response, Prefix
  > test-agg-strata.R: 
  > test-agg-strata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-agg-strata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-agg-strata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-agg-strata.R: v Metadata parsed successfully
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Reading repertoire data 
  > test-agg-strata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-agg-strata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-agg-strata.R: i Checking if all files are of the same type
  > test-agg-strata.R: v All files have the same extension
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Renaming the columns and schemas 
  > test-agg-strata.R: v Renaming is finished
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Preprocessing the data 
  > test-agg-strata.R:   1. exclude_columns
  > test-agg-strata.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-agg-strata.R: v Preprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Aggregating the data to receptors 
  > test-agg-strata.R: i No locus information found
  > test-agg-strata.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-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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c467a42c85/annotations.parquet]
  > test-filter-immundata-lev.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c467a42c85/metadata.json]
  > test-filter-immundata-lev.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c467a42c85]
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c467a42c85']
  > test-agg-strata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-filter-immundata-lev.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c467a42c85']
  > test-filter-immundata-lev.R: 
  > test-filter-immundata-lev.R: -- Summary 
  > test-filter-immundata-lev.R: i Time elapsed: 5.56 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 and [1668] receptors
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Reading repertoire data 
  > test-filter-immundata-regex.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata-regex.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-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-regex.R:   2. filter_nonproductive
  > test-agg-strata.R: v Joining plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Postprocessing the data 
  > test-agg-strata.R:   1. prefix_barcodes
  > test-agg-strata.R: v Postprocessing plan is ready
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Saving the newly created ImmunData to disk 
  > test-agg-strata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c7fd34dbf/annotations.parquet]
  > 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-agg-strata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c7fd34dbf/metadata.json]
  > test-agg-strata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c7fd34dbf]
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c7fd34dbf']
  > test-agg-strata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c7fd34dbf']
  > test-agg-strata.R: 
  > test-agg-strata.R: -- Summary 
  > test-agg-strata.R: i Time elapsed: 6.65 secs
  > test-agg-strata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-agg-strata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > 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. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-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-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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43d2f5ab/annotations.parquet]
  > test-filter-immundata-regex.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43d2f5ab/metadata.json]
  > test-filter-immundata-regex.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43d2f5ab]
  > test-filter-immundata-regex.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43d2f5ab']
  > test-filter-immundata-regex.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c43d2f5ab']
  > test-filter-immundata-regex.R: 
  > test-filter-immundata-regex.R: -- Summary 
  > test-filter-immundata-regex.R: i Time elapsed: 5.02 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 and [1668] receptors
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Reading repertoire data 
  > test-filter-receptors.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-receptors.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-receptors.R: 
  > test-filter-receptors.R: -- Renaming the columns and schemas 
  > 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-receptors.R:   2. filter_nonproductive
  > 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 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 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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c75d22bb7/annotations.parquet]
  > test-filter-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c75d22bb7/metadata.json]
  > test-filter-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c75d22bb7]
  > test-filter-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c75d22bb7']
  > test-filter-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c75d22bb7']
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Summary 
  > test-filter-immundata.R: i Time elapsed: 6.09 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 and [1668] receptors
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Reading repertoire data 
  > test-filter-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-filter-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\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-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-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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf21fb/annotations.parquet]
  > 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: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf21fb/metadata.json]
  > test-filter-receptors.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf21fb]
  > test-filter-receptors.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf21fb']
  > test-filter-receptors.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c47bf21fb']
  > test-filter-receptors.R: 
  > test-filter-receptors.R: -- Summary 
  > test-filter-receptors.R: i Time elapsed: 5.25 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 and [1668] receptors
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\legacy_v1_511c47d1b5125/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\legacy_v1_511c47d1b5125/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\legacy_v1_511c47d1b5125]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\legacy_v1_511c47d1b5125']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\legacy_v1_511c47d1b5125']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.26 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\legacy_v1_511c47d1b5125']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > 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 [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33c55807/annotations.parquet]
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-filter-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33c55807/metadata.json]
  > test-filter-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33c55807]
  > test-filter-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33c55807']
  > test-filter-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c33c55807']
  > test-filter-immundata.R: 
  > test-filter-immundata.R: -- Summary 
  > test-filter-immundata.R: i Time elapsed: 5.17 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 and [1668] receptors
  > test-io-repertoires-agg-stepwise.R: 
  > test-io-repertoires-agg-stepwise.R: -- Reading repertoire data 
  > test-io-repertoires-agg-stepwise.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c49e7c2f.tsv
  > test-io-repertoires-agg-stepwise.R: i Checking if all files are of the same type
  > test-io-repertoires-agg-stepwise.R: v All files have the same extension
  > test-io-repertoires-agg-stepwise.R: 
  > test-io-repertoires-agg-stepwise.R: -- Aggregating the data to receptors 
  > test-io-repertoires-agg-stepwise.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-agg-stepwise.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-agg-stepwise.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg-stepwise.R: 
  > test-io-repertoires-agg-stepwise.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg-stepwise.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e226bfa/annotations.parquet]
  > test-io-repertoires-agg-stepwise.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e226bfa/metadata.json]
  > test-io-repertoires-agg-stepwise.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e226bfa]
  > test-io-repertoires-agg-stepwise.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e226bfa']
  > test-io-repertoires-agg-stepwise.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e226bfa']
  > test-io-repertoires-agg-stepwise.R: 
  > test-io-repertoires-agg-stepwise.R: -- Summary 
  > test-io-repertoires-agg-stepwise.R: i Time elapsed: 0.59 secs
  > test-io-repertoires-agg-stepwise.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-agg-stepwise.R: v Loaded ImmunData with [5] chains and [4] receptors
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  Saving _problems/test-io-repertoires-agg-stepwise-125.R
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Reading repertoire data 
  > test-io-repertoires-agg.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c1ba1cbd.tsv
  > test-io-repertoires-agg.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: v All files have the same extension
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Aggregating the data to receptors 
  > test-io-repertoires-agg.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-agg.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.26 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-agg.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c490ae0/annotations.parquet]
  > test-io-repertoires-agg.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c490ae0/metadata.json]
  > test-io-repertoires-agg.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c490ae0]
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c490ae0']
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c490ae0']
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Summary 
  > test-io-repertoires-agg.R: i Time elapsed: 0.65 secs
  > test-io-repertoires-agg.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-agg.R: v Loaded ImmunData with [5] chains and [4] receptors
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Reading repertoire data 
  > test-io-repertoires-agg.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c21e82d79.tsv
  > test-io-repertoires-agg.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: v All files have the same extension
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.38 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-agg.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c2ef62907/annotations.parquet]
  > test-io-repertoires-agg.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c2ef62907/metadata.json]
  > test-io-repertoires-agg.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c2ef62907]
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c2ef62907']
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c2ef62907']
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Summary 
  > test-io-repertoires-agg.R: i Time elapsed: 2.37 secs
  > test-io-repertoires-agg.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-agg.R: v Loaded ImmunData with [6] chains and [3] receptors
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.2 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: Rows: 2 Columns: 4
  > test-io-immundata.R: -- Column specification --------------------------------------------------------
  > test-io-immundata.R: Delimiter: "\t"
  > test-io-immundata.R: chr (4): File, Therapy, Response, Prefix
  > test-io-immundata.R: 
  > test-io-immundata.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-immundata.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-immundata.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-io-immundata.R: v Metadata parsed successfully
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Reading repertoire data 
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-repertoires-agg.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c5b251210.tsv
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-agg.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: v All files have the same extension
  > test-io-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-repertoires-agg.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-agg.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-agg.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2cb214446/annotations.parquet]
  > test-io-repertoires-agg.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2cb214446/metadata.json]
  > test-io-repertoires-agg.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2cb214446]
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2cb214446']
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2cb214446']
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Summary 
  > test-io-repertoires-agg.R: i Time elapsed: 2.42 secs
  > test-io-repertoires-agg.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-agg.R: v Loaded ImmunData with [6] chains and [2] receptors
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Reading repertoire data 
  > test-io-repertoires-agg.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c17471177.tsv
  > test-io-repertoires-agg.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: v All files have the same extension
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-repertoires-agg.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-immundata.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-io-repertoires-agg.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Joining plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-repertoires-agg.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c22c04cc8/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 5.13 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-agg.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c22c04cc8/metadata.json]
  > test-io-repertoires-agg.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c22c04cc8]
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c22c04cc8']
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c22c04cc8']
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Summary 
  > test-io-repertoires-agg.R: i Time elapsed: 2.4 secs
  > test-io-repertoires-agg.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-agg.R: v Loaded ImmunData with [4] chains and [2] receptors
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Reading repertoire data 
  > test-io-repertoires-agg.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c6ca0b5d.tsv
  > test-io-repertoires-agg.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: v All files have the same extension
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Aggregating the data to receptors 
  > test-io-repertoires-agg.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-agg.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.23 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001']
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-agg.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1a522148/annotations.parquet]
  > test-io-repertoires-agg.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1a522148/metadata.json]
  > test-io-repertoires-agg.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1a522148]
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1a522148']
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1a522148']
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Summary 
  > test-io-repertoires-agg.R: i Time elapsed: 2.53 secs
  > test-io-repertoires-agg.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-agg.R: v Loaded ImmunData with [6] chains and [2] receptors
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Reading repertoire data 
  > test-io-repertoires-agg.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c51ec4b56.tsv
  > test-io-repertoires-agg.R: i Checking if all files are of the same type
  > test-io-repertoires-agg.R: v All files have the same extension
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Renaming the columns and schemas 
  > test-io-repertoires-agg.R: v Renaming is finished
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Preprocessing the data 
  > test-io-repertoires-agg.R:   1. exclude_columns
  > test-io-repertoires-agg.R:   2. filter_nonproductive
  > test-io-repertoires-agg.R:   ! No columns with the productive specification found; skipping the filtering
  > test-io-repertoires-agg.R: v Preprocessing plan is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Aggregating the data to receptors 
  > test-io-repertoires-agg.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-agg.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.28 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/snapshots/baseline/v001']
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call")]
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002']
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\treated\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\treated\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\treated\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\treated\v001']
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-agg.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Postprocessing the data 
  > test-io-repertoires-agg.R:   1. prefix_barcodes
  > test-io-repertoires-agg.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-agg.R: v Postprocessing plan is ready
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-agg.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c19a2c10/annotations.parquet]
  > test-io-repertoires-agg.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c19a2c10/metadata.json]
  > test-io-repertoires-agg.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c19a2c10]
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c19a2c10']
  > test-io-repertoires-agg.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c19a2c10']
  > test-io-repertoires-agg.R: 
  > test-io-repertoires-agg.R: -- Summary 
  > test-io-repertoires-agg.R: i Time elapsed: 2.68 secs
  > test-io-repertoires-agg.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-agg.R: v Loaded ImmunData with [2] chains and [1] receptors
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  Saving _problems/test-io-repertoires-agg-47.R
  Saving _problems/test-io-repertoires-agg-47.R
  Saving _problems/test-io-repertoires-agg-47.R
  Saving _problems/test-io-repertoires-agg-64.R
  Saving _problems/test-io-repertoires-agg-70.R
  Saving _problems/test-io-repertoires-agg-88.R
  Saving _problems/test-io-repertoires-agg-96.R
  > test-io-immundata.R: i Time elapsed: 2.15 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/snapshots/baseline/v001']
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call")]
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002/annotations.parquet]
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c12821ddf.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002/metadata.json]
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v002']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/snapshots/baseline/v002']
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call")]
  > test-io-repertoires-counts.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/snapshots/baseline/v001']
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call")]
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c39921f63/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c39921f63/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c39921f63]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c39921f63']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c39921f63']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 0.63 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [5] chains and [4] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c153c5881.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c65784100/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c65784100/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c65784100]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c65784100']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c65784100']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 0.61 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [3] chains and [3] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c287315af.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.24 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Preprocessing the data 
  > test-io-immundata.R:   1. exclude_columns
  > test-io-immundata.R:   2. filter_nonproductive
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3af7710f/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3af7710f/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3af7710f]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3af7710f']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3af7710f']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 2.37 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [6] chains and [2] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c49a558bc.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Preprocessing plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6fac4682/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6fac4682/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6fac4682]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6fac4682']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6fac4682']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 2.4 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [2] chains and [1] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c62a44601.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Postprocessing the data 
  > test-io-immundata.R:   1. prefix_barcodes
  > test-io-immundata.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-immundata.R: v Postprocessing plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44246748c/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44246748c/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44246748c]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44246748c']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c44246748c']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 4.87 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c15e57d7/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c15e57d7/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c15e57d7]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c15e57d7']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c15e57d7']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 2.57 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [2] chains and [1] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c6a844e69.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found relaxed locus pair: IGH + (IGL|IGK). The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.16 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB']
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\baseline\v001']
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB']
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB\snapshots\baseline\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB\snapshots\baseline\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB\snapshots\baseline\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectB\snapshots\baseline\v001']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3d0a5b9a/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3d0a5b9a/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3d0a5b9a]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3d0a5b9a']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3d0a5b9a']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 2.82 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL|IGK")]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [4] chains and [2] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c69f62b04.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-counts.R: i Processing data as bulk sequencing immune repertoires - with counts, no barcodes, no chain pairing possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c23a62127/annotations.parquet]
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c23a62127/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c23a62127]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c23a62127']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c23a62127']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 0.33 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [4] chains and [3] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c73c71d.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 2.4 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\ops\v001/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\ops\v001/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\ops\v001]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\imd_snap_tests\projectA\snapshots\ops\v001']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Preprocessing the data 
  > test-io-immundata.R:   1. exclude_columns
  > test-io-immundata.R:   2. filter_nonproductive
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c43d022a4/annotations.parquet]
  > test-io-immundata.R: v Preprocessing plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c43d022a4/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c43d022a4]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c43d022a4']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c43d022a4']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 2.52 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [4] chains and [2] receptors
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Reading repertoire data 
  > test-io-repertoires-counts.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c73c71d.tsv
  > test-io-repertoires-counts.R: i Checking if all files are of the same type
  > test-io-repertoires-counts.R: v All files have the same extension
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Aggregating the data to receptors 
  > test-io-repertoires-counts.R: i Found relaxed locus pair: IGH + (IGL|IGK). The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-counts.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-counts.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-counts.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3f102080/annotations.parquet]
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Postprocessing the data 
  > test-io-immundata.R:   1. prefix_barcodes
  > test-io-immundata.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-immundata.R: v Postprocessing plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421e87478/annotations.parquet]
  > test-io-repertoires-counts.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3f102080/metadata.json]
  > test-io-repertoires-counts.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3f102080]
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3f102080']
  > test-io-repertoires-counts.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3f102080']
  > test-io-repertoires-counts.R: 
  > test-io-repertoires-counts.R: -- Summary 
  > test-io-repertoires-counts.R: i Time elapsed: 2.99 secs
  > test-io-repertoires-counts.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL|IGK")]
  > test-io-repertoires-counts.R: v Loaded ImmunData with [4] chains and [2] receptors
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421e87478/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421e87478]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421e87478']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c421e87478']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 5.27 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Reading repertoire data 
  > test-io-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-io-repertoires-files.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-files.R: i Checking if all files are of the same type
  > test-io-repertoires-files.R: v All files have the same extension
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Reading repertoire data 
  > test-io-immundata.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-immundata.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-immundata.R: i Checking if all files are of the same type
  > test-io-immundata.R: v All files have the same extension
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Renaming the columns and schemas 
  > test-io-repertoires-files.R: v Renaming is finished
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Aggregating the data to receptors 
  > test-io-repertoires-files.R: i No locus information found
  > test-io-repertoires-files.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Renaming the columns and schemas 
  > test-io-immundata.R: v Renaming is finished
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Preprocessing the data 
  > test-io-immundata.R:   1. exclude_columns
  > test-io-immundata.R:   2. filter_nonproductive
  > test-io-immundata.R: v Preprocessing plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Aggregating the data to receptors 
  > test-io-immundata.R: i No locus information found
  > test-io-immundata.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-files.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-files.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c414634f4/annotations.parquet]
  > test-io-repertoires-files.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c414634f4/metadata.json]
  > test-io-repertoires-files.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c414634f4]
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c414634f4']
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c414634f4']
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Summary 
  > test-io-repertoires-files.R: i Time elapsed: 2.03 secs
  > test-io-repertoires-files.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-files.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Reading repertoire data 
  > test-io-repertoires-files.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-files.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-files.R: i Checking if all files are of the same type
  > test-io-repertoires-files.R: v All files have the same extension
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Renaming the columns and schemas 
  > test-io-repertoires-files.R: v Renaming is finished
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Aggregating the data to receptors 
  > test-io-repertoires-files.R: i No locus information found
  > test-io-repertoires-files.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-immundata.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Postprocessing the data 
  > test-io-immundata.R:   1. prefix_barcodes
  > test-io-immundata.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-immundata.R: v Postprocessing plan is ready
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Saving the newly created ImmunData to disk 
  > test-io-immundata.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c42b1d4b54/annotations.parquet]
  > test-io-immundata.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c42b1d4b54/metadata.json]
  > test-io-immundata.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c42b1d4b54]
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c42b1d4b54']
  > test-io-immundata.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c42b1d4b54']
  > test-io-immundata.R: 
  > test-io-immundata.R: -- Summary 
  > test-io-immundata.R: i Time elapsed: 4.96 secs
  > test-io-immundata.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-immundata.R: v Loaded ImmunData with [1902] chains and [1668] receptors
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Reading repertoire data 
  > test-io-repertoires-processing.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-processing.R: i Checking if all files are of the same type
  > test-io-repertoires-processing.R: v All files have the same extension
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Renaming the columns and schemas 
  > test-io-repertoires-processing.R: v Renaming is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Preprocessing the data 
  > test-io-repertoires-processing.R:   1. exclude_columns
  > test-io-repertoires-files.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-files.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5793133e/annotations.parquet]
  > test-io-repertoires-processing.R: v Preprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating the data to receptors 
  > test-io-repertoires-processing.R: i No locus information found
  > test-io-repertoires-processing.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-files.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5793133e/metadata.json]
  > test-io-repertoires-files.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5793133e]
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5793133e']
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5793133e']
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Summary 
  > test-io-repertoires-files.R: i Time elapsed: 4.04 secs
  > test-io-repertoires-files.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-files.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Reading repertoire data 
  > test-io-repertoires-files.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-files.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-files.R: i Checking if all files are of the same type
  > test-io-repertoires-files.R: v All files have the same extension
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Renaming the columns and schemas 
  > test-io-repertoires-files.R: v Renaming is finished
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Aggregating the data to receptors 
  > test-io-repertoires-files.R: i No locus information found
  > test-io-repertoires-files.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-processing.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Postprocessing the data 
  > test-io-repertoires-processing.R:   1. prefix_barcodes
  > test-io-repertoires-processing.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-processing.R: v Postprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-processing.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude/annotations.parquet]
  > test-io-repertoires-processing.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude/metadata.json]
  > test-io-repertoires-processing.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude]
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude']
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Summary 
  > test-io-repertoires-processing.R: i Time elapsed: 2.19 secs
  > test-io-repertoires-processing.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-processing.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Reading repertoire data 
  > test-io-repertoires-processing.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-processing.R: i Checking if all files are of the same type
  > test-io-repertoires-processing.R: v All files have the same extension
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Renaming the columns and schemas 
  > test-io-repertoires-processing.R: v Introduced new renamed columns: v_gene
  > test-io-repertoires-processing.R: v Renaming is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Preprocessing the data 
  > test-io-repertoires-processing.R:   1. exclude_columns
  > test-io-repertoires-processing.R:   2. filter_nonproductive
  > test-io-repertoires-processing.R: v Preprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating the data to receptors 
  > test-io-repertoires-processing.R: i No locus information found
  > test-io-repertoires-processing.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-files.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-files.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1b3367b9/annotations.parquet]
  > test-io-repertoires-files.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1b3367b9/metadata.json]
  > test-io-repertoires-files.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1b3367b9]
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1b3367b9']
  > test-io-repertoires-processing.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1b3367b9']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Postprocessing the data 
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Summary 
  > test-io-repertoires-processing.R:   1. prefix_barcodes
  > test-io-repertoires-files.R: i Time elapsed: 4.07 secs
  > test-io-repertoires-processing.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-processing.R: v Postprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-processing.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-rename/annotations.parquet]
  > test-io-repertoires-files.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-files.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-repertoires-files.R: Rows: 2 Columns: 4
  > test-io-repertoires-files.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires-files.R: Delimiter: "\t"
  > test-io-repertoires-files.R: chr (4): File, Therapy, Response, Prefix
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires-files.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires-files.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-io-repertoires-files.R: v Metadata parsed successfully
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Reading repertoire data 
  > test-io-repertoires-files.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-files.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-files.R: i Checking if all files are of the same type
  > test-io-repertoires-files.R: v All files have the same extension
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Renaming the columns and schemas 
  > test-io-repertoires-processing.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-rename/metadata.json]
  > test-io-repertoires-processing.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-rename]
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-rename']
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-rename']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Summary 
  > test-io-repertoires-processing.R: i Time elapsed: 3.25 secs
  > test-io-repertoires-processing.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_gene") and NULL]
  > test-io-repertoires-processing.R: v Loaded ImmunData with [955] chains and [871] receptors
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Reading repertoire data 
  > test-io-repertoires-processing.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-processing.R: i Checking if all files are of the same type
  > test-io-repertoires-processing.R: v All files have the same extension
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Renaming the columns and schemas 
  > test-io-repertoires-files.R: v Renaming is finished
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Aggregating the data to receptors 
  > test-io-repertoires-files.R: i No locus information found
  > test-io-repertoires-files.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-processing.R: v Introduced new renamed columns: j_gene
  > test-io-repertoires-processing.R: v Renaming is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Preprocessing the data 
  > test-io-repertoires-processing.R:   1. exclude_columns
  > test-io-repertoires-processing.R: v Preprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating the data to receptors 
  > test-io-repertoires-processing.R: i No locus information found
  > test-io-repertoires-processing.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-processing.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Postprocessing the data 
  > test-io-repertoires-processing.R:   1. prefix_barcodes
  > test-io-repertoires-processing.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-processing.R: v Postprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-processing.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude-rename/annotations.parquet]
  > test-io-repertoires-processing.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude-rename/metadata.json]
  > test-io-repertoires-processing.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude-rename]
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude-rename']
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-exclude-rename']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Summary 
  > test-io-repertoires-processing.R: i Time elapsed: 2.4 secs
  > test-io-repertoires-processing.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call", "j_gene") and NULL]
  > test-io-repertoires-processing.R: v Loaded ImmunData with [1000] chains and [917] receptors
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Reading repertoire data 
  > test-io-repertoires-processing.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-processing.R: i Checking if all files are of the same type
  > test-io-repertoires-processing.R: v All files have the same extension
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Renaming the columns and schemas 
  > test-io-repertoires-processing.R: v Renaming is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Preprocessing the data 
  > test-io-repertoires-processing.R:   1. exclude_columns
  > test-io-repertoires-processing.R:   2. filter_nonproductive
  > test-io-repertoires-files.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-io-repertoires-processing.R: v Preprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating the data to receptors 
  > test-io-repertoires-processing.R: i No locus information found
  > test-io-repertoires-processing.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-files.R: v Joining plan is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-files.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c68c52db8/annotations.parquet]
  > test-io-repertoires-files.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c68c52db8/metadata.json]
  > test-io-repertoires-files.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c68c52db8]
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c68c52db8']
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c68c52db8']
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Summary 
  > test-io-repertoires-files.R: i Time elapsed: 5.26 secs
  > test-io-repertoires-files.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-processing.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Postprocessing the data 
  > test-io-repertoires-files.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-repertoires-processing.R:   1. prefix_barcodes
  > test-io-repertoires-processing.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-processing.R: v Postprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-processing.R: i Writing the receptor annotation data to [D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k/annotations.parquet]
  > test-io-repertoires-files.R: Rows: 2 Columns: 4
  > test-io-repertoires-files.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires-files.R: Delimiter: "\t"
  > test-io-repertoires-files.R: chr (4): File, Therapy, Response, Prefix
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires-files.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires-files.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-io-repertoires-files.R: v Metadata parsed successfully
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Reading repertoire data 
  > test-io-repertoires-files.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-files.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-files.R: i Checking if all files are of the same type
  > test-io-repertoires-files.R: v All files have the same extension
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Renaming the columns and schemas 
  > test-io-repertoires-processing.R: i Writing the metadata to [D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k/metadata.json]
  > test-io-repertoires-processing.R: v ImmunData files saved to [D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k]
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k']
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Summary 
  > test-io-repertoires-processing.R: i Time elapsed: 2.91 secs
  > test-io-repertoires-processing.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-processing.R: v Loaded ImmunData with [955] chains and [871] receptors
  > test-io-repertoires-files.R: v Renaming is finished
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Aggregating the data to receptors 
  > test-io-repertoires-files.R: i No locus information found
  > test-io-repertoires-files.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-processing.R: Rows: 1000 Columns: 40
  > test-io-repertoires-processing.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires-processing.R: Delimiter: "\t"
  > test-io-repertoires-processing.R: chr (16): sequence_id, repertoire_id, locus, sequence, v_call, d_call, j_cal...
  > test-io-repertoires-processing.R: dbl  (5): clone_id, v_score, d_score, j_score, counts
  > test-io-repertoires-processing.R: lgl (19): stop_codon, vj_in_frame, productive, fwr1, cdr1, fwr2, cdr2, fwr1_...
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires-processing.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Reading repertoire data 
  > test-io-repertoires-processing.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-processing.R: i Checking if all files are of the same type
  > test-io-repertoires-processing.R: v All files have the same extension
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Renaming the columns and schemas 
  > test-io-repertoires-processing.R: v Renaming is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating the data to receptors 
  > test-io-repertoires-processing.R: i No locus information found
  > test-io-repertoires-processing.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-processing.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Postprocessing the data 
  > test-io-repertoires-processing.R:   1. prefix_barcodes
  > test-io-repertoires-processing.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-processing.R: v Postprocessing plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-processing.R: i Writing the receptor annotation data to [D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k/annotations.parquet]
  > test-io-repertoires-processing.R: i Writing the metadata to [D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k/metadata.json]
  > test-io-repertoires-processing.R: v ImmunData files saved to [D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k]
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k']
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\immundata-sample_0_1k']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Summary 
  > test-io-repertoires-processing.R: i Time elapsed: 2.23 secs
  > test-io-repertoires-processing.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-processing.R: v Loaded ImmunData with [1000] chains and [916] receptors
  > test-io-repertoires-files.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-io-repertoires-processing.R: Rows: 1000 Columns: 40
  > test-io-repertoires-processing.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires-processing.R: Delimiter: "\t"
  > test-io-repertoires-processing.R: chr (16): sequence_id, repertoire_id, locus, sequence, v_call, d_call, j_cal...
  > test-io-repertoires-processing.R: dbl  (5): clone_id, v_score, d_score, j_score, counts
  > test-io-repertoires-processing.R: lgl (19): stop_codon, vj_in_frame, productive, fwr1, cdr1, fwr2, cdr2, fwr1_...
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires-processing.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires-processing.R: Rows: 2 Columns: 4
  > test-io-repertoires-processing.R: -- Column specification --------------------------------------------------------
  > test-io-repertoires-processing.R: Delimiter: "\t"
  > test-io-repertoires-processing.R: chr (4): File, Therapy, Response, Prefix
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: i Use `spec()` to retrieve the full column specification for this data.
  > test-io-repertoires-processing.R: i Specify the column types or set `show_col_types = FALSE` to quiet this message.
  > test-io-repertoires-processing.R: i Found 2/2 repertoire files from the metadata on the disk
  > test-io-repertoires-processing.R: v Metadata parsed successfully
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Reading repertoire data 
  > test-io-repertoires-processing.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-processing.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-processing.R: i Checking if all files are of the same type
  > test-io-repertoires-processing.R: v All files have the same extension
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Renaming the columns and schemas 
  > test-io-repertoires-files.R: v Joining plan is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-files.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e764608/annotations.parquet]
  > test-io-repertoires-processing.R: v Renaming is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating the data to receptors 
  > test-io-repertoires-processing.R: i No locus information found
  > test-io-repertoires-processing.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-files.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e764608/metadata.json]
  > test-io-repertoires-files.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e764608]
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e764608']
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c6e764608']
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Summary 
  > test-io-repertoires-files.R: i Time elapsed: 5.23 secs
  > test-io-repertoires-files.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-files.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Reading repertoire data 
  > test-io-repertoires-files.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-files.R:   2. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_1k_2k.tsv
  > test-io-repertoires-files.R: i Checking if all files are of the same type
  > test-io-repertoires-files.R: v All files have the same extension
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Renaming the columns and schemas 
  > test-io-repertoires-files.R: v Renaming is finished
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Aggregating the data to receptors 
  > test-io-repertoires-files.R: i No locus information found
  > test-io-repertoires-files.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-processing.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-io-repertoires-processing.R: v Joining plan is ready
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Aggregating repertoires... 
  > test-io-repertoires-files.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Joining the metadata table with the dataset using 'filename' column 
  > test-io-repertoires-files.R: v Joining plan is ready
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-files.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c12f48/annotations.parquet]
  > test-io-repertoires-files.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c12f48/metadata.json]
  > test-io-repertoires-files.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c12f48]
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c12f48']
  > test-io-repertoires-files.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c12f48']
  > test-io-repertoires-files.R: 
  > test-io-repertoires-files.R: -- Summary 
  > test-io-repertoires-files.R: i Time elapsed: 5.31 secs
  > test-io-repertoires-files.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-files.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Reading repertoire data 
  > test-io-repertoires-schema-paired.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\ig\multiple_ig_loci.tsv.gz
  > test-io-repertoires-schema-paired.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-paired.R: v All files have the same extension
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-paired.R: i Found locus pair: IGH and IGK. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-schema-paired.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-processing.R: v Aggregation is finished
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-processing.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c4530f5db/annotations.parquet]
  > test-io-repertoires-processing.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c4530f5db/metadata.json]
  > test-io-repertoires-processing.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c4530f5db]
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c4530f5db']
  > test-io-repertoires-processing.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c4530f5db']
  > test-io-repertoires-processing.R: 
  > test-io-repertoires-processing.R: -- Summary 
  > test-io-repertoires-processing.R: i Time elapsed: 32.9 secs
  > test-io-repertoires-processing.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-processing.R: v Loaded ImmunData with the repertoire schema: [Therapy]
  > test-io-repertoires-processing.R: v Loaded ImmunData with [2000] chains and [1757] receptors
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Reading repertoire data 
  > test-io-repertoires-schema-single.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\ig\multiple_ig_loci.tsv.gz
  > test-io-repertoires-schema-single.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-single.R: v All files have the same extension
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-single.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-schema-single.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-schema-paired.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-paired.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3164bf4/annotations.parquet]
  > test-io-repertoires-schema-single.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-single.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c47cdf9a2/annotations.parquet]
  > test-io-repertoires-schema-single.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c47cdf9a2/metadata.json]
  > test-io-repertoires-schema-single.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c47cdf9a2]
  > test-io-repertoires-schema-single.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c47cdf9a2']
  > test-io-repertoires-schema-single.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c47cdf9a2']
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Summary 
  > test-io-repertoires-schema-single.R: i Time elapsed: 5.83 secs
  > test-io-repertoires-schema-single.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-schema-single.R: v Loaded ImmunData with [915] chains and [907] receptors
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Reading repertoire data 
  > test-io-repertoires-schema-single.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c4d584622.tsv
  > test-io-repertoires-schema-single.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-single.R: v All files have the same extension
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-single.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-schema-single.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-schema-single.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-single.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42bbf2d71/annotations.parquet]
  > test-io-repertoires-schema-single.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42bbf2d71/metadata.json]
  > test-io-repertoires-schema-single.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42bbf2d71]
  > test-io-repertoires-schema-single.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42bbf2d71']
  > test-io-repertoires-schema-single.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42bbf2d71']
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Summary 
  > test-io-repertoires-schema-single.R: i Time elapsed: 0.59 secs
  > test-io-repertoires-schema-single.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-schema-single.R: v Loaded ImmunData with [1] chains and [1] receptors
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Reading repertoire data 
  > test-io-repertoires-schema-single.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\file511c45d4e5d56.tsv
  > test-io-repertoires-schema-single.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-single.R: v All files have the same extension
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-single.R: i Found target locus: IGH. The dataset will be pre-filtered to leave chains for this locus only
  > test-io-repertoires-schema-single.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-schema-single.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-single.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42af91771/annotations.parquet]
  > test-io-repertoires-schema-single.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42af91771/metadata.json]
  > test-io-repertoires-schema-single.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42af91771]
  > test-io-repertoires-schema-single.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42af91771']
  > test-io-repertoires-schema-paired.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3164bf4/metadata.json]
  > test-io-repertoires-schema-single.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test_immundata_511c42af91771']
  > test-io-repertoires-schema-paired.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3164bf4]
  > test-io-repertoires-schema-single.R: 
  > test-io-repertoires-schema-single.R: -- Summary 
  > test-io-repertoires-schema-single.R: i Time elapsed: 0.56 secs
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3164bf4']
  > test-io-repertoires-schema-single.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and IGH]
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c3164bf4']
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Summary 
  > test-io-repertoires-schema-single.R: v Loaded ImmunData with [1] chains and [1] receptors
  > test-io-repertoires-schema-paired.R: i Time elapsed: 34.72 secs
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGK")]
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with [944] chains and [470] receptors
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Reading repertoire data 
  > test-io-repertoires-schema-table.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema-table.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-table.R: v All files have the same extension
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema-table.R: v Renaming is finished
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Preprocessing the data 
  > test-io-repertoires-schema-table.R:   1. exclude_columns
  > test-io-repertoires-schema-table.R:   2. filter_nonproductive
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Reading repertoire data 
  > test-io-repertoires-schema-paired.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\ig\multiple_ig_loci.tsv.gz
  > test-io-repertoires-schema-paired.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-paired.R: v All files have the same extension
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-paired.R: i Found relaxed locus pair: IGH + (IGK|IGL). The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-schema-paired.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-schema-table.R: v Preprocessing plan is ready
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-table.R: i No locus information found
  > test-io-repertoires-schema-table.R: i Processing data as immune repertoire tables - no counts, no barcodes, no chain pairing possible
  > test-io-repertoires-schema-table.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Postprocessing the data 
  > test-io-repertoires-schema-table.R:   1. prefix_barcodes
  > test-io-repertoires-schema-table.R:   ! No column 'Prefix' with barcode prefixes found in the data; skipping the barcode processing
  > test-io-repertoires-schema-table.R: v Postprocessing plan is ready
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-table.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-no-barcodes/annotations.parquet]
  > test-io-repertoires-schema-table.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-no-barcodes/metadata.json]
  > test-io-repertoires-schema-table.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-no-barcodes]
  > test-io-repertoires-schema-table.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-no-barcodes']
  > test-io-repertoires-schema-table.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp258aRt\test-no-barcodes']
  > test-io-repertoires-schema-table.R: 
  > test-io-repertoires-schema-table.R: -- Summary 
  > test-io-repertoires-schema-table.R: i Time elapsed: 2.92 secs
  > test-io-repertoires-schema-table.R: v Loaded ImmunData with the receptor schema: [c("cdr3_aa", "v_call") and NULL]
  > test-io-repertoires-schema-table.R: v Loaded ImmunData with [955] chains and [871] receptors
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Reading repertoire data 
  > test-io-repertoires-schema.R:   1. D:\RCompile\CRANpkg\lib\4.5\immundata\extdata\tsv\sample_0_1k.tsv
  > test-io-repertoires-schema.R: i Checking if all files are of the same type
  > test-io-repertoires-schema.R: v All files have the same extension
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Renaming the columns and schemas 
  > test-io-repertoires-schema.R: v Renaming is finished
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Preprocessing the data 
  > test-io-repertoires-schema.R:   1. exclude_columns
  > test-io-repertoires-schema.R:   2. filter_nonproductive
  > test-io-repertoires-schema.R: v Preprocessing plan is ready
  > test-io-repertoires-schema.R: 
  > test-io-repertoires-schema.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-paired.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-paired.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5cb413e7/annotations.parquet]
  > test-io-repertoires-schema-paired.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5cb413e7/metadata.json]
  > test-io-repertoires-schema-paired.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5cb413e7]
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5cb413e7']
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c5cb413e7']
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Summary 
  > test-io-repertoires-schema-paired.R: i Time elapsed: 34.77 secs
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGK|IGL")]
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with [1814] chains and [901] receptors
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Reading repertoire data 
  > test-io-repertoires-schema-paired.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c32ea708d.tsv
  > test-io-repertoires-schema-paired.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-paired.R: v All files have the same extension
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-paired.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-schema-paired.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-schema-paired.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-paired.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c279765e0/annotations.parquet]
  > test-io-repertoires-schema-paired.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c279765e0/metadata.json]
  > test-io-repertoires-schema-paired.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c279765e0]
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c279765e0']
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c279765e0']
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Summary 
  > test-io-repertoires-schema-paired.R: i Time elapsed: 2.65 secs
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with [2] chains and [1] receptors
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Reading repertoire data 
  > test-io-repertoires-schema-paired.R:   1. D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\filebaa2c2fe97d58.tsv
  > test-io-repertoires-schema-paired.R: i Checking if all files are of the same type
  > test-io-repertoires-schema-paired.R: v All files have the same extension
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Aggregating the data to receptors 
  > test-io-repertoires-schema-paired.R: i Found locus pair: IGH and IGL. The dataset will be pre-filtered to leave chains for these loci only
  > test-io-repertoires-schema-paired.R: i Processing data as single-cell sequencing immune repertoires - no counts, with barcodes, chain pairing is possible
  > test-io-repertoires-schema-paired.R: v Execution plan for receptor data aggregation and annotation is ready
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Saving the newly created ImmunData to disk 
  > test-io-repertoires-schema-paired.R: i Writing the receptor annotation data to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1d66d0a/annotations.parquet]
  > test-io-repertoires-schema-paired.R: i Writing the metadata to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1d66d0a/metadata.json]
  > test-io-repertoires-schema-paired.R: v ImmunData files saved to [D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1d66d0a]
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1d66d0a']
  > test-io-repertoires-schema-paired.R: i Reading ImmunData files from ['D:\temp\2026_03_27_01_50_00_19420\Rtmp8wpSaE\test_immundata_baa2c1d66d0a']
  > test-io-repertoires-schema-paired.R: 
  > test-io-repertoires-schema-paired.R: -- Summary 
  > test-io-repertoires-schema-paired.R: i Time elapsed: 2.38 secs
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with the receptor schema: [c("v_call", "j_call", "junction_aa") and c("IGH", "IGL")]
  > test-io-repertoires-schema-paired.R: v Loaded ImmunData with [2] chains and [1] receptors
  [ FAIL 8 | WARN 0 | SKIP 0 | PASS 316 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-io-repertoires-agg-stepwise.R:125:3'): agg_repertoires single-chain stepwise materialized path is stable ──
  <duckdb_error/rlang_error/error/condition>
  Error in `(function (context, message, error_type = NULL, raw_message = NULL, extra_info = NULL)  {     fields <- list()     fields$context <- context     fields$error_type <- error_type     fields$raw_message <- raw_message     fields$extra_info <- extra_info     error_parts <- c(message, i = paste0("Context: ", context))     if (!is.null(error_type)) {         error_parts <- c(error_parts, i = paste0("Error type: ", error_type))     }     if (length(extra_info) > 0) {         info_text <- paste0(names(extra_info), ": ", extra_info)         names(info_text) <- rep_len("i", length(info_text))         error_parts <- c(error_parts, info_text)     }     rlang::abort(error_parts, class = "duckdb_error", !!!fields) })("GetQueryResult", "Error evaluating duckdb query: INTERNAL Error: Failed to bind column reference \"imd_barcode\" [42.0]: inequal types (VARCHAR != INTEGER)\nThis error signals an assertion failure within DuckDB. This usually occurs due to unexpected conditions or errors in the program's logic.\nFor more information, see https://duckdb.org/docs/stable/dev/internal_errors")`: Error evaluating duckdb query: INTERNAL Error: Failed to bind column reference "imd_barcode" [42.0]: inequal types (VARCHAR != INTEGER)
  This error signals an assertion failure within DuckDB. This usually occurs due to unexpected conditions or errors in the program's logic.
  For more information, see https://duckdb.org/docs/stable/dev/internal_errors
  i Context: GetQueryResult
  Backtrace:
       ▆
    1. ├─dplyr::collect(single_chain_annotations) at test-io-repertoires-agg-stepwise.R:125:3
    2. ├─duckplyr:::collect.prudent_duckplyr_df(single_chain_annotations)
    3. │ ├─dplyr::collect(out)
    4. │ └─duckplyr:::collect.duckplyr_df(out)
    5. │   └─base::nrow(x)
    6. │     ├─base::dim(x)
    7. │     └─base::dim.data.frame(x)
    8. │       └─base::.row_names_info(x, 2L)
    9. └─duckdb (local) `<fn>`("GetQueryResult", "Error evaluating duckdb query: INTERNAL Error: Failed to bind column reference \"imd_barcode\" [42.0]: inequal types (VARCHAR != INTEGER)\nThis error signals an assertion failure within DuckDB. This usually occurs due to unexpected conditions or errors in the program's logic.\nFor more information, see https://duckdb.org/docs/stable/dev/internal_errors")
   10.   └─rlang::abort(error_parts, class = "duckdb_error", !!!fields)
  ── Failure ('test-io-repertoires-agg.R:43:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `all(ann_na_counts == 0)` to be TRUE.
  Differences:
  `actual`:   FALSE
  `expected`: TRUE 
  
  context: single-chain duplicated receptors
  agg schema: sample_id
  input annotation shape: 5x13
  input repertoire shape: <not captured>
  annotation shape: 5x16
  repertoire shape: 2x4
  missing annotation columns: <none>
  missing repertoire columns: <none>
  annotation NA counts: imd_receptor_id=0, imd_repertoire_id=5, imd_count=5, imd_proportion=5, n_repertoires=0
  repertoire NA counts: imd_repertoire_id=0, n_barcodes=0, n_receptors=2
  unmatched repertoire ids: NA
  
  input annotations dump:
   cell_id sample_id v_call j_call junction_aa locus umi_count filename                                                              imd_barcode imd_chain_id imd_receptor_id imd_n_chains imd_count
   cell1   Sample1   IGHV1  IGHJ1  CARW        IGH   100       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell1       1            3               1            0        
   cell2   Sample1   IGHV1  IGHJ1  CARW        IGH   150       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell2       2            3               1            0        
   cell3   Sample1   IGHV2  IGHJ2  CBRW        IGH   200       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell3       3            4               1            0        
   cell4   Sample2   IGHV3  IGHJ3  CCRW        IGH   250       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell4       4            2               1            0        
   cell5   Sample2   IGHV4  IGHJ4  CDRW        IGH   300       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell5       5            1               1            0        
  
  input repertoires dump:
  <NULL>
  
  annotations dump:
   cell_id sample_id v_call j_call junction_aa locus umi_count filename                                                              imd_barcode imd_chain_id imd_receptor_id imd_n_chains imd_count imd_repertoire_id imd_proportion n_repertoires
   cell1   Sample1   IGHV1  IGHJ1  CARW        IGH   100       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell1       1            3               1            NA        NA                NA             1            
   cell2   Sample1   IGHV1  IGHJ1  CARW        IGH   150       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell2       2            3               1            NA        NA                NA             1            
   cell3   Sample1   IGHV2  IGHJ2  CBRW        IGH   200       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell3       3            4               1            NA        NA                NA             1            
   cell4   Sample2   IGHV3  IGHJ3  CCRW        IGH   250       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell4       4            2               1            NA        NA                NA             1            
   cell5   Sample2   IGHV4  IGHJ4  CDRW        IGH   300       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell5       5            1               1            NA        NA                NA             1            
  
  repertoires dump:
   imd_repertoire_id sample_id n_barcodes n_receptors
   1                 Sample2   2          NA         
   2                 Sample1   3          NA         
  Backtrace:
      ▆
   1. └─immundata:::agg_repertoires_with_integrity(...) at test-io-repertoires-agg.R:43:3
   2.   └─immundata:::expect_agg_repertoires_integrity(...) at ./helper-io.R:239:3
   3.     └─testthat::expect_true(all(ann_na_counts == 0), info = diag) at ./helper-io.R:205:5
  ── Failure ('test-io-repertoires-agg.R:43:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `all(reps_na_counts == 0)` to be TRUE.
  Differences:
  `actual`:   FALSE
  `expected`: TRUE 
  
  context: single-chain duplicated receptors
  agg schema: sample_id
  input annotation shape: 5x13
  input repertoire shape: <not captured>
  annotation shape: 5x16
  repertoire shape: 2x4
  missing annotation columns: <none>
  missing repertoire columns: <none>
  annotation NA counts: imd_receptor_id=0, imd_repertoire_id=5, imd_count=5, imd_proportion=5, n_repertoires=0
  repertoire NA counts: imd_repertoire_id=0, n_barcodes=0, n_receptors=2
  unmatched repertoire ids: NA
  
  input annotations dump:
   cell_id sample_id v_call j_call junction_aa locus umi_count filename                                                              imd_barcode imd_chain_id imd_receptor_id imd_n_chains imd_count
   cell1   Sample1   IGHV1  IGHJ1  CARW        IGH   100       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell1       1            3               1            0        
   cell2   Sample1   IGHV1  IGHJ1  CARW        IGH   150       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell2       2            3               1            0        
   cell3   Sample1   IGHV2  IGHJ2  CBRW        IGH   200       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell3       3            4               1            0        
   cell4   Sample2   IGHV3  IGHJ3  CCRW        IGH   250       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell4       4            2               1            0        
   cell5   Sample2   IGHV4  IGHJ4  CDRW        IGH   300       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell5       5            1               1            0        
  
  input repertoires dump:
  <NULL>
  
  annotations dump:
   cell_id sample_id v_call j_call junction_aa locus umi_count filename                                                              imd_barcode imd_chain_id imd_receptor_id imd_n_chains imd_count imd_repertoire_id imd_proportion n_repertoires
   cell1   Sample1   IGHV1  IGHJ1  CARW        IGH   100       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell1       1            3               1            NA        NA                NA             1            
   cell2   Sample1   IGHV1  IGHJ1  CARW        IGH   150       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell2       2            3               1            NA        NA                NA             1            
   cell3   Sample1   IGHV2  IGHJ2  CBRW        IGH   200       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell3       3            4               1            NA        NA                NA             1            
   cell4   Sample2   IGHV3  IGHJ3  CCRW        IGH   250       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell4       4            2               1            NA        NA                NA             1            
   cell5   Sample2   IGHV4  IGHJ4  CDRW        IGH   300       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell5       5            1               1            NA        NA                NA             1            
  
  repertoires dump:
   imd_repertoire_id sample_id n_barcodes n_receptors
   1                 Sample2   2          NA         
   2                 Sample1   3          NA         
  Backtrace:
      ▆
   1. └─immundata:::agg_repertoires_with_integrity(...) at test-io-repertoires-agg.R:43:3
   2.   └─immundata:::expect_agg_repertoires_integrity(...) at ./helper-io.R:239:3
   3.     └─testthat::expect_true(all(reps_na_counts == 0), info = diag) at ./helper-io.R:208:5
  ── Failure ('test-io-repertoires-agg.R:43:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `nrow(unmatched_repertoire_ids)` to equal 0.
  Differences:
    `actual`: 1.0
  `expected`: 0.0
  
  context: single-chain duplicated receptors
  agg schema: sample_id
  input annotation shape: 5x13
  input repertoire shape: <not captured>
  annotation shape: 5x16
  repertoire shape: 2x4
  missing annotation columns: <none>
  missing repertoire columns: <none>
  annotation NA counts: imd_receptor_id=0, imd_repertoire_id=5, imd_count=5, imd_proportion=5, n_repertoires=0
  repertoire NA counts: imd_repertoire_id=0, n_barcodes=0, n_receptors=2
  unmatched repertoire ids: NA
  
  input annotations dump:
   cell_id sample_id v_call j_call junction_aa locus umi_count filename                                                              imd_barcode imd_chain_id imd_receptor_id imd_n_chains imd_count
   cell1   Sample1   IGHV1  IGHJ1  CARW        IGH   100       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell1       1            3               1            0        
   cell2   Sample1   IGHV1  IGHJ1  CARW        IGH   150       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell2       2            3               1            0        
   cell3   Sample1   IGHV2  IGHJ2  CBRW        IGH   200       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell3       3            4               1            0        
   cell4   Sample2   IGHV3  IGHJ3  CCRW        IGH   250       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell4       4            2               1            0        
   cell5   Sample2   IGHV4  IGHJ4  CDRW        IGH   300       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell5       5            1               1            0        
  
  input repertoires dump:
  <NULL>
  
  annotations dump:
   cell_id sample_id v_call j_call junction_aa locus umi_count filename                                                              imd_barcode imd_chain_id imd_receptor_id imd_n_chains imd_count imd_repertoire_id imd_proportion n_repertoires
   cell1   Sample1   IGHV1  IGHJ1  CARW        IGH   100       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell1       1            3               1            NA        NA                NA             1            
   cell2   Sample1   IGHV1  IGHJ1  CARW        IGH   150       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell2       2            3               1            NA        NA                NA             1            
   cell3   Sample1   IGHV2  IGHJ2  CBRW        IGH   200       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell3       3            4               1            NA        NA                NA             1            
   cell4   Sample2   IGHV3  IGHJ3  CCRW        IGH   250       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell4       4            2               1            NA        NA                NA             1            
   cell5   Sample2   IGHV4  IGHJ4  CDRW        IGH   300       D:\\temp\\2026_03_27_01_50_00_19420\\Rtmp8wpSaE\\filebaa2c1ba1cbd.tsv cell5       5            1               1            NA        NA                NA             1            
  
  repertoires dump:
   imd_repertoire_id sample_id n_barcodes n_receptors
   1                 Sample2   2          NA         
   2                 Sample1   3          NA         
  Backtrace:
      ▆
   1. └─immundata:::agg_repertoires_with_integrity(...) at test-io-repertoires-agg.R:43:3
   2.   └─immundata:::expect_agg_repertoires_integrity(...) at ./helper-io.R:239:3
   3.     └─testthat::expect_equal(nrow(unmatched_repertoire_ids), 0, info = diag) at ./helper-io.R:212:5
  ── Failure ('test-io-repertoires-agg.R:62:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `sample1_stats$n_receptors` to equal 2.
  Differences:
    `actual`:  NA
  `expected`: 2.0
  
  Sample1 should have 2 unique receptors
  ── Failure ('test-io-repertoires-agg.R:68:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `sample2_stats$n_receptors` to equal 2.
  Differences:
    `actual`:  NA
  `expected`: 2.0
  
  Sample2 should have 2 unique receptors
  ── Failure ('test-io-repertoires-agg.R:86:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `sample1_counts$total_count1[1]` to equal 2.
  Differences:
    `actual`:  NA
  `expected`: 2.0
  
  Shared receptor should have count of 2
  ── Failure ('test-io-repertoires-agg.R:94:3'): agg_repertoires counts single-chain receptors correctly ──
  Expected `sample1_counts$total_count2[1]` to equal 2.
  Differences:
    `actual`:  NA
  `expected`: 2.0
  
  Shared receptor should have count of 2
  
  [ FAIL 8 | WARN 0 | SKIP 0 | PASS 316 ]
  Error:
  ! Test failures.
  Execution halted