Running examples in ‘fastqcr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: qc_aggregate
> ### Title: Aggregate FastQC Reports for Multiple Samples
> ### Aliases: qc_aggregate summary.qc_aggregate qc_stats
> 
> ### ** Examples
> 
> # Demo QC dir
> qc.dir <- system.file("fastqc_results", package = "fastqcr")
> qc.dir
[1] "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/fastqcr/fastqc_results"
> 
> # List of files in the directory
> list.files(qc.dir)
[1] "S1_fastqc.zip" "S2_fastqc.zip" "S3_fastqc.zip" "S4_fastqc.zip"
[5] "S5_fastqc.zip"
> 
> # Aggregate the report
> qc <- qc_aggregate(qc.dir, progressbar = FALSE)
Rows: 12 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (3): status, module, sample

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 7 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Measure, Value

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 16 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (1): Duplication Level
dbl (2): Percentage of deduplicated, Percentage of total

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 0 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Total Deduplicated Percentage, 82.7616329532754

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 12 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (3): status, module, sample

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 7 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Measure, Value

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 16 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (1): Duplication Level
dbl (2): Percentage of deduplicated, Percentage of total

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 0 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Total Deduplicated Percentage, 84.29622447696052

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 12 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (3): status, module, sample

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 7 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Measure, Value

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 16 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (1): Duplication Level
dbl (2): Percentage of deduplicated, Percentage of total

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 0 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Total Deduplicated Percentage, 77.85759595869786

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 12 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (3): status, module, sample

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 7 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Measure, Value

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 16 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (1): Duplication Level
dbl (2): Percentage of deduplicated, Percentage of total

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 0 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Total Deduplicated Percentage, 80.10708743156657

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 12 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (3): status, module, sample

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 7 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Measure, Value

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 16 Columns: 3
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (1): Duplication Level
dbl (2): Percentage of deduplicated, Percentage of total

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Rows: 0 Columns: 2
── Column specification ────────────────────────────────────────────────────────
Delimiter: "\t"
chr (2): Total Deduplicated Percentage, 81.85424272012848

ℹ Use `spec()` to retrieve the full column specification for this data.
ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Warning: `select_()` was deprecated in dplyr 0.7.0.
ℹ Please use `select()` instead.
ℹ The deprecated feature was likely used in the fastqcr package.
  Please report the issue at <https://github.com/kassambara/fastqcr/issues>.
> qc
# A tibble: 60 × 7
   sample module                       status tot.seq  seq.length pct.gc pct.dup
 * <chr>  <chr>                        <chr>  <chr>    <chr>       <dbl>   <dbl>
 1 S1     Basic Statistics             PASS   50299587 35-76          48    17.2
 2 S1     Per base sequence quality    PASS   50299587 35-76          48    17.2
 3 S1     Per tile sequence quality    PASS   50299587 35-76          48    17.2
 4 S1     Per sequence quality scores  PASS   50299587 35-76          48    17.2
 5 S1     Per base sequence content    FAIL   50299587 35-76          48    17.2
 6 S1     Per sequence GC content      WARN   50299587 35-76          48    17.2
 7 S1     Per base N content           PASS   50299587 35-76          48    17.2
 8 S1     Sequence Length Distribution WARN   50299587 35-76          48    17.2
 9 S1     Sequence Duplication Levels  PASS   50299587 35-76          48    17.2
10 S1     Overrepresented sequences    PASS   50299587 35-76          48    17.2
# … with 50 more rows
> 
> # Generates a summary of qc_aggregate
> summary(qc)
Warning: `group_by_()` was deprecated in dplyr 0.7.0.
ℹ Please use `group_by()` instead.
ℹ See vignette('programming') for more help
ℹ The deprecated feature was likely used in the fastqcr package.
  Please report the issue at <https://github.com/kassambara/fastqcr/issues>.
Error in `left_join()`:
! `...` must be empty.
✖ Problematic argument:
• fill = "---"
Backtrace:
    ▆
 1. ├─base::summary(qc)
 2. └─fastqcr:::summary.qc_aggregate(qc)
 3.   ├─dplyr::left_join(res, failed, by = "module", fill = "---")
 4.   └─dplyr:::left_join.data.frame(res, failed, by = "module", fill = "---")
 5.     └─rlang::check_dots_empty0(...)
 6.       └─rlang::check_dots_empty(call = call)
 7.         └─rlang:::action_dots(...)
 8.           ├─base (local) try_dots(...)
 9.           └─rlang (local) action(...)
Execution halted