Can't change the outputDirectory of the ArchRproj

[joeyQX]

I want to change the outputDirectory so i save to a new outputDirectory.
saveArchRProject(

• ArchRProj = proj_FBs,
• outputDirectory = "E:/scATAC-seq/FBs/",
• overwrite = TRUE,
• load = TRUE
• )

Copying ArchRProject to new outputDirectory : E:\scATAC-seq\FBs
Copying Arrow Files...
Copying Arrow Files (1 of 24)
Copying Arrow Files (2 of 24)
Copying Arrow Files (3 of 24)
Copying Arrow Files (4 of 24)
Copying Arrow Files (5 of 24)
Copying Arrow Files (6 of 24)
Copying Arrow Files (7 of 24)
Copying Arrow Files (8 of 24)
Copying Arrow Files (9 of 24)
Copying Arrow Files (10 of 24)
Copying Arrow Files (11 of 24)
Copying Arrow Files (12 of 24)
Copying Arrow Files (13 of 24)
Copying Arrow Files (14 of 24)
Copying Arrow Files (15 of 24)
Copying Arrow Files (16 of 24)
Copying Arrow Files (17 of 24)
Copying Arrow Files (18 of 24)
Copying Arrow Files (19 of 24)
Copying Arrow Files (20 of 24)
Copying Arrow Files (21 of 24)
Copying Arrow Files (22 of 24)
Copying Arrow Files (23 of 24)
Copying Arrow Files (24 of 24)
Getting ImputeWeights
No imputeWeights found, returning NULL
Copying Other Files...
Copying Other Files (1 of 28): Ang1
Copying Other Files (2 of 28): Ang10
Copying Other Files (3 of 28): Ang11
Copying Other Files (4 of 28): Ang12
Copying Other Files (5 of 28): Ang2
Copying Other Files (6 of 28): Ang3
Copying Other Files (7 of 28): Ang4
Copying Other Files (8 of 28): Ang5
Copying Other Files (9 of 28): Ang6
Copying Other Files (10 of 28): Ang7
Copying Other Files (11 of 28): Ang8
Copying Other Files (12 of 28): Ang9
Copying Other Files (13 of 28): Embeddings
Copying Other Files (14 of 28): IterativeLSI
Copying Other Files (15 of 28): Plots
Copying Other Files (16 of 28): RNAIntegration
Copying Other Files (17 of 28): WT1
Copying Other Files (18 of 28): WT10
Copying Other Files (19 of 28): WT11
Copying Other Files (20 of 28): WT12
Copying Other Files (21 of 28): WT2
Copying Other Files (22 of 28): WT3
Copying Other Files (23 of 28): WT4
Copying Other Files (24 of 28): WT5
Copying Other Files (25 of 28): WT6
Copying Other Files (26 of 28): WT7
Copying Other Files (27 of 28): WT8
Copying Other Files (28 of 28): WT9
Saving ArchRProject...
Loading ArchRProject...
Successfully loaded ArchRProject!

then i tried the ArchrProj

proj_FBs

       ___      .______        ______  __    __  .______      
      /   \     |   _  \      /      ||  |  |  | |   _  \     
     /  ^  \    |  |_)  |    |  ,----'|  |__|  | |  |_)  |    
    /  /_\  \   |      /     |  |     |   __   | |      /     
   /  _____  \  |  |\  \\___ |  `----.|  |  |  | |  |\  \\___.
  /__/     \__\ | _| `._____| \______||__|  |__| | _| `._____|

class: ArchRProject
outputDirectory: E:\scATAC-seq\begin\unfiltered_output
samples(24): Ang7 Ang10 ... WT1 WT9
sampleColData names(1): ArrowFiles
cellColData names(26): Sample TSSEnrichment ... LabelClust_RNA Clusters_new
numberOfCells(1): 110500
medianTSS(1): 24.935
medianFrags(1): 7874

again the outputDirectory comes back to original. Not the outputDirectory i set, and i don't konw why.

proj_FBs <- setOutputDirectory(proj_FBs, outputDirectory = "E:/scATAC-seq/FBs/")
error setOutputDirectory(proj_FBs, outputDirectory = "E:/scATAC-seq/FBs/"): This didn't work too.

[rcorces]

Hi @joeyQX! Thanks for using ArchR! Lately, it has been very challenging for me to keep up with maintenance of this package and all of my other
responsibilities as a PI. I have not been responding to issue posts and I have not been pushing updates to the software. We are actively searching to hire
a computational biologist to continue to develop and maintain ArchR and related tools. If you know someone who might be a good fit, please let us know!
In the meantime, your issue will likely go without a reply. Most issues with ArchR right not relate to compatibility. Try reverting to R 4.1 and Bioconductor 3.15.
Newer versions of Seurat and Matrix also are causing issues. Sorry for not being able to provide active support for this package at this time.

[immanuelazn]

Hi @joeyQX , Let me try reproducing on my end, probably won't be until end of week.

[joeyQX]

OK! Thanks a lot!