Unexpected error when running cqc_fix(res)

[fingeram]

Hi,

I am trying to run cytoqc to standardize channels across different fcs datasets. I am running the code as described but receive the error: "Error: Invalid input type, expected 'integer' actual 'double'" when running cqc_fix. Can you please help? I have the newest version of R (4.2.2) and updated all my packages. Thanks a lot!!

#if fcs files have different columns try using cytoqc to standardize
files <- list.files(fcs.dir, ".fcs", full.names = TRUE)
cqc_data <- cqc_load_fcs(files)
cqc_data

cytoqc data:
5 samples

#check consistency across samples
check_results <- cqc_check(cqc_data, type="channel")
check_results

A tibble: 2 × 3

group_id nFCS channel

1 2 4 FJComp-AF-A, FJComp-Alexa Fluor 488-A, FJComp-Alexa Fluor 647-A, FJComp-Alexa Fluor 700-A, FJComp-Alexa Fluor 750-A, FJComp-APC-A, FJComp-…
2 1 1 FJComp-AF-A, FJComp-Alexa Fluor 488-A, FJComp-Alexa Fluor 594-A, FJComp-Alexa Fluor 647-A, FJComp-Alexa Fluor 700-A, FJComp-Alexa Fluor 75…

#match the reference
res <- cqc_match(check_results,ref=2)
res

                              Ref                        1

1 FJComp-AF-A ✓
2 FJComp-Alexa Fluor 488-A ✓
3 FJComp-Alexa Fluor 647-A ✓
4 FJComp-Alexa Fluor 700-A ✓
5 FJComp-Alexa Fluor 750-A ✓
6 FJComp-APC-A ✓
7 FJComp-BV510-A ✓
8 FJComp-BV605-A ✓
9 FJComp-BV711-A ✓
10 FJComp-BV785-A ✓
11 FJComp-eFluor 450-A ✓
12 FJComp-PE-Cy7-A ✓
13 FJComp-PerCP-Cy5.5-A ✓
14 FJComp-Zombie NIR-A ✓
15 FSC-A ✓
16 FSC-H ✓
17 SSC-A ✓
18 SSC-B-A ✓
19 SSC-B-H ✓
20 SSC-H ✓
21 Time ✓
23 To Delete FJComp-Alexa Fluor 594-A

#apply the fix
cqc_fix(res)

Error: Invalid input type, expected 'integer' actual 'double'

[mikejiang]

I pushed the patch to master branch which should fix the issue

[fingeram]

Awesome, works now - thanks a lot