Automatic retrieval of input id.csv from test-datasets for test profile about fetchngs HOT 5 CLOSED

I realized it can be solved with a simple fix:
bug1303@798be6f
Then it actually finds the csv file.

However, version 1.12.0 of fetchngs is supposed to come out very soon, and there it is set to fetch input from test-datasets:
https://raw.githubusercontent.com/nf-core/test-datasets/2732b911c57e607fa7aea5ba0c3d91b25bafb662/testdata/v1.12.0/sra_ids_test.csv

from fetchngs.

yeah, sorry about that, this issue has been fixed in dev, and we're preparing the release

from fetchngs.

The csv file is actually part of the release, you can see it at https://github.com/nf-core/fetchngs/blob/1.11.0/tests/sra_ids_test.csv

and it does get fetched:

cat $NXF_HOME/assets/nf-core/fetchngs/tests/sra_ids_test.csv
ERR1160846
GSE214215
SRR12848126

When I launch the pipeline with test profile, it reports:

[...]
nf-core/fetchngs v1.11.0-g04ee503
[...]
projectDir : /xxxxxxx/nxf-home/assets/nf-core/fetchngs

So, projectDir is set to the expected path, but is not expanded properly.

This is on nextflow version 23.04.1.5866

from fetchngs.

it was a simple why did I use single quotes instead of double quotes error

from fetchngs.

Oh, I see! Thanks for the info! Closing this issue then!

from fetchngs.