tests/testthat/helper-cache.R

In steinbaugh/brio: Pipette Biological Data In and Out of R

lst <- AcidDevTools::cacheTestFiles(
    pkg = .pkgName,
    files = c(
        "example.counts",
        "example.csv",
        "example.csv.gz",
        "example.csv.zip",
        ## Subset of transcripts from `gencode.v38.transcripts.fa.gz` file.
        "example.fa.gz",
        ## Klein Lab inDrops R3 FASTQ file (from bcbio-nextgen unit tests).
        "example.fq.gz",
        ## https://geneontology.org/gene-associations/goa_human_rna.gaf.gz
        "example.gaf.gz",
        ## https://igv.org/doc/desktop/
        "example.gct",
        "example.gtf",
        "example.gff3",
        "example.json",
        # DepMap example.
        "example.maf",
        ## Example gene ontology OBO file from BiocSet package.
        "example.obo",
        "example.R",
        "example.rda",
        "example.rds",
        "example.tsv",
        "example.txt",
        "example.txt.bz2",
        "example.txt.gz",
        "example.txt.xz",
        "example.txt.zip",
        "example.xls",
        "example.xlsx",
        "example.yml",
        "geneset.gmt",
        "geneset.gmx",
        "geneset.grp",
        "gr.rda",
        "h.all.v6.2.entrez.gmt",
        "h.all.v6.2.symbols.gmt",
        "multi.rda",
        "renamed.rda",
        "rnaseq_counts.csv.gz",
        "serialized.rds",
        "single_cell_counts.mtx.gz",
        "single_cell_counts.mtx.gz.colnames",
        "single_cell_counts.mtx.gz.rownames",
        ## Rsamtools extdata files.
        "example.bam",
        "example.bam.bai",
        "example.bcf.gz",
        "example.bcf.gz.csi",
        "example.sam",
        "example.vcf.gz",
        "example.vcf.gz.csi"
    )
)
cacheDir <- lst[["cacheDir"]]
rm(lst)