Unable to create tutorial arrow files

[janeshen91]

Hello, I've been having trouble creating the arrow files according to the tutorial, with the hematopoeiesis dataset.
I used the latest version of ArchR and used the code

library(ArchR)
set.seed(1)
addArchRThreads(threads = 1)
inputFiles <- getTutorialData("Hematopoiesis")
inputFiles
addArchRGenome("hg19")
ArrowFiles <- createArrowFiles(
  inputFiles = inputFiles,
  sampleNames = names(inputFiles),
  filterTSS = 4, 
  filterFrags = 1000, 
  addTileMat = TRUE,
  addGeneScoreMat = TRUE
)
ArrowFiles

I then see the error

filterFrags is no longer a valid input. Please use minFrags! Setting filterFrags value to minFrags!
filterTSS is no longer a valid input. Please use minTSS! Setting filterTSS value to minTSS!
Using GeneAnnotation set by addArchRGenome(Hg19)!
Using GeneAnnotation set by addArchRGenome(Hg19)!
ArchR logging to : ArchRLogs/ArchR-createArrows-7aca78b037f7-Date-2021-10-29_Time-14-26-21.log
If there is an issue, please report to github with logFile!
2021-10-29 14:26:21 : Batch Execution w/ safelapply!, 0 mins elapsed.
2021-10-29 14:26:21 : (scATAC_BMMC_R1 : 1 of 3) Reading In Fragments from inputFiles (readMethod = tabix), 0 mins elapsed.
2021-10-29 14:26:21 : (scATAC_BMMC_R1 : 1 of 3) Tabix Bed To Temporary File, 0 mins elapsed.

************************************************************
2021-10-29 14:26:21 : ERROR Found in .tabixToTmp for (scATAC_BMMC_R1 : 1 of 3) 
LogFile = ArchRLogs/ArchR-createArrows-7aca78b037f7-Date-2021-10-29_Time-14-26-21.log

<simpleError in H5Fcreate(file): HDF5. File accessibility. Unable to open file.>

************************************************************

2021-10-29 14:26:21 : createArrowFiles has encountered an error, checking if any ArrowFiles completed..
ArchR logging successful to : ArchRLogs/ArchR-createArrows-7aca78b037f7-Date-2021-10-29_Time-14-26-21.log

This is part of an effort to resolve other HDF5 accessibility errorrs I've been encountering while trying to access an ArchR project my coworker passed to me . Please advise. Thanks

ArchR-createArrows-7aca78b037f7-Date-2021-10-29_Time-14-26-21.log

[rcorces]

Sorry for the delay in my reply. I dont really have an idea as to why this doesnt work for you.
There have been some reported issues with R v4.1.1 but this doesnt resemble that - #1044 (reply in thread)

There are also reported issues with certain file systems that result in HDF5 errors but this also doesnt resemble that -
#248

In general, if the tutorial isnt working, its likely an environment problem and these are extremely difficult for me to troubleshoot.

As a first pass, please check that the tutorial fragment files have downloaded completely - #1071 (comment)

[rcorces]

closing due to inactivity