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Import program versions

Source: R/importProgramVersions.R
importProgramVersions.Rd

Import program versions

Usage

importProgramVersions(file)

Arguments

file

character(1). File path.

Value

DataFrame.

Note

bcbio doesn't save program versions when run in fast mode.

Updated 2022-03-07.

Author

Michael Steinbaugh

Examples

file <- file.path(bcbioBaseTestsUrl, "programs.txt")
x <- importProgramVersions(file)
#> → Downloading <https://r.acidgenomics.com/testdata/bcbiobase/programs.txt> to /private/var/folders/l1/8y8sjzmn15v49jgrqglghcfr0000gn/T/RtmprBcLWH/CMjqB3WayV-169651164652464/pipette-10f0e5fc073b7.txt.
#> → Importing <https://r.acidgenomics.com/testdata/bcbiobase/programs.txt> using base::`read.table()`.
print(x)
#> DataFrame with 51 rows and 2 columns
#>                    program         version
#>                <character>     <character>
#> 1                 bamtools           2.4.0
#> 2            bcbio-nextgen 1.0.4a0-06d3bb4
#> 3          bcbio-variation           0.2.6
#> 4                 bcftools           1.4.1
#> 5                 bedtools          2.26.0
#> ...                    ...             ...
#> 47  variant-effect-predi..              87
#> 48                 varscan           2.4.2
#> 49                  vcflib       1.0.0_rc1
#> 50                      vt      2015.11.10
#> 51                    wham       1.7.0.307