Hi! I am wondering how the hash values are (or used to be?) created when passing files to a snapshot assert? E.g. the `default.nf.test` does something like

def stable_name = getAllFilesFromDir(params.outdir, relative: true, includeDir: true, ignore: ['pipeline_info/*.{html,json,txt}'])
def stable_file = getAllFilesFromDir(params.outdir, ignoreFile: 'tests/.nftignore')

{ assert snapshot(
    removeNextflowVersion("$outputDir/pipeline_info/qcflow_software_mqc_versions.yml"),
    stable_name,
    stable_file
).match() }

and somehow the hashes magically appear in the snapshot behind the corresponding file, like

[
    "Sample1.bam:md5,b659fef4c129faf27bb69210b6a9fcc7",
    "Sample1.bam.bai:md5,da403861301abccd8f6314c6390f7989",
    ...
]

for the

stable_file

. However, if I now do this again in another test, i.e. passing a few files collected via

getAllFilesFromDir()

or

getAllFilesFromPath()

to the

snapshot()

, then I don't have the hashes but only the relative file paths like in

stable_name

. Can you remind me, what is the mechanics that adds the hashes?

that's internal nf-test that does md5sum snapshot

No blame, there is plenty of documentation and I read the nf-test and nft-utils doc to understand what's going on. ✨

er, if I remember well it's probably a question of getting a relative path or not

hmmm... I tested your hypothesis

def baiFiles = getAllFilesFromPath(params.outdir, relative: true, include: ["**/bam/*.bai"])
def baiFilesMD5 = getAllFilesFromPath(params.outdir, relative: false, include: ["**/bam/*.bai"])

but it did not just not print the hashes but also repeated the relative paths... 😞 Result:

[
                "path/to/my/Sample1.bam.bai",
                "path/to/my/Sample2.bam.bai",
                "path/to/my/Sample3.bam.bai",
                "path/to/my/Sample4.bam.bai",
            ],
            [
                "path/to/my/Sample1.bam.bai",
                "path/to/my/Sample2.bam.bai",
                "path/to/my/Sample3.bam.bai",
                "path/to/my/Sample4.bam.bai",
            ],

[nft-utils-1.0.0]

What about includeDir?

🤷 it's bit frustrating to test the parameters until I find the one that does the trick 😅 I'll keep trying another day. It's late in my timezone... thanks for your input though!

I'll have a look right away