Vignettes not building

[lwaldron]

See https://github.com/r-universe/waldronlab/actions/runs/5069485118/jobs/9103162194

[drighelli]

Thanks @lwaldron for pointing this out!

@LiNk-NY are the new data already in the EH? I think it could be related to that... I'll look into it better tomorrow!

[LiNk-NY]

@drighelli I don't think they have been added to the database yet. I can take a look at the error.

Update: Yup, it looks like resources e.g., scADT_clrCounts haven't been added to the DB.

[lwaldron]

Reviving this issue.

[drighelli]

@LiNk-NY is there any data still missing ?

[LiNk-NY]

I've contacted @kayla-morrell for follow up. FWIW, I am checking with:

> query(eh, "scADT_clrCounts")
ExperimentHub with 0 records
# snapshotDate(): 2023-07-03

[LiNk-NY]

Thanks to Kayla, it has been fixed.

> query(eh, "scADT_clrCounts")
ExperimentHub with 1 record
# snapshotDate(): 2023-07-05
# names(): EH8305
# package(): SingleCellMultiModal
# $dataprovider: Innovation Lab, New York Genome Center, New York, United States
# $species: Homo sapiens
# $rdataclass: matrix
# $rdatadateadded: 2023-07-05
# $title: scADT_clrCounts
# $description: scADT_clrCounts data specific to the CORD_BLOOD project
# $taxonomyid: 9606
# $genome: NA
# $sourcetype: TXT
# $sourceurl: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100866
# $sourcesize: NA
# $tags: c("GEO", "ReproducibleResearch", "SingleCellData") 
# retrieve record with 'object[["EH8305"]]' 

[LiNk-NY]

The latest build on GHA looks good https://github.com/waldronlab/SingleCellMultiModal/actions/runs/5467956548/jobs/9954947568 I'm pushing to upstream and closing this issue. Thanks.