Sqanti rescue: error in plotting

[ChrissiKalk97]

Hello :)

I am using Sqanti3 to clean up my transcriptome assembly and the QC and filter (rules) step have worked really nicely so far. For the Sqanti rescue step I run into the following error:

Generating common filter plots...

summarise() has grouped output by 'structural_category'. You can override
using the .groups argument.
summarise() has grouped output by 'filter'. You can override using the
.groups argument.
summarise() has grouped output by 'filter'. You can override using the
.groups argument.
Warning message:
There was 1 warning in dplyr::mutate().
ℹ In argument: filter = factor(filter) %>% forcats::fct_relevel(c("Before", "After")).
Caused by warning:
! 2 unknown levels in f: Before and After
summarise() has grouped output by 'filter'. You can override using the
.groups argument.
Error in dplyr::mutate():
ℹ In argument: ism_type = %>%(...).
Caused by error in forcats::fct_relevel():
! .f must be a factor or character vector, not an empty logical
vector.
Backtrace:
▆

1. ├─... %>% ...
2. ├─dplyr::mutate(...)
3. ├─dplyr:::mutate.data.frame(...)
4. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
5. │ ├─base::withCallingHandlers(...)
6. │ └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
7. │ └─mask$eval_all_mutate(quo)
8. │ └─dplyr (local) eval()
9. ├─... %>% forcats::fct_relevel(c("Unique", "Multiple"))
10. └─forcats::fct_relevel(., c("Unique", "Multiple"))
11. └─forcats:::check_factor(.f)

12. └─cli::cli_abort(...)
    

13.   └─rlang::abort(...)
    

Execution halted

I have checked many times that my input files are correct. I run in full mode and with the rules option. Also the QC run on the reference ran without errors. Maybe someone has encountered the same error. Any help and suggestions are much appreciated! :)

Best,

Christina

[dorotheavellame]

I am having the same issue, did you find a solution to this? 😅