GreenleafLab
Can't change the outputDirectory of the ArchRproj
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.
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.
Hi @joeyQX , Let me try reproducing on my end, probably won't be until end of week.
