Error: Missing required datasets 'levels' and 'values'

[mcraftt]

I ran the code for format conversion: Rscript annh5ad2rds.R --infile aa.h5ad --outfile aa.rds

here's what i got:

Attaching package: ‘dplyr’

The following objects are masked from ‘package:stats’:

filter, lag

The following objects are masked from ‘package:base’:

intersect, setdiff, setequal, union

Attaching SeuratObject Registered S3 method overwritten by 'SeuratDisk': method from
as.sparse.H5Group Seurat Warning: Unknown file type: h5ad Creating h5Seurat file for version 3.1.5.9900 Adding X as data Adding raw/X as counts Adding meta.features from raw/var Adding spatial as cell embeddings for spatial Adding raw_cellname to miscellaneous data Adding raw_counts to miscellaneous data Adding rawgenename to miscellaneous data Adding sn to miscellaneous data [1] "Finished! Converting h5ad to h5seurat file at:" [2] "aa.h5seurat"
Validating h5Seurat file Initializing Spatial with data Adding counts for Spatial Adding feature-level metadata for Spatial Adding reduction spatial Adding cell embeddings for spatial Adding miscellaneous information for spatial Adding command information Adding cell-level metadata Error: Missing required datasets 'levels' and 'values' In addition: Warning message: Cannot add objects with duplicate keys (offending key: spatial), setting key to 'spatialos_' Execution halted

[tanliwei-coder]

Sorry for replying so late, the version 0.13.0b1 there is an error on this functionality, you can downgrade to 0.12.1 and try again, and notice that you should run data.tl.cal_qc before data.tl.raw_checkpoint.