During startup - Warning messages:
1: Setting LC_CTYPE failed, using "C" 
2: Setting LC_COLLATE failed, using "C" 
3: Setting LC_TIME failed, using "C" 
4: Setting LC_MESSAGES failed, using "C" 
5: Setting LC_MONETARY failed, using "C" 
6: Setting LC_PAPER failed, using "C" 
7: Setting LC_MEASUREMENT failed, using "C" 

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       /  _____  \  |  |\  \\___ |  `----.|  |  |  | |  |\  \\___.
      /__/     \__\ | _| `._____| \______||__|  |__| | _| `._____|
    
ArchR : Version 1.0.2
For more information see our website : www.ArchRProject.com
If you encounter a bug please report : https://github.com/GreenleafLab/ArchR/issues
Loading Required Packages...
	Loading Package : grid v4.2.2
	Loading Package : gridExtra v2.3
	Loading Package : gtools v3.9.4
	Loading Package : gtable v0.3.1
	Loading Package : ggplot2 v3.3.6
	Loading Package : magrittr v2.0.3
	Loading Package : plyr v1.8.8
	Loading Package : stringr v1.5.0
	Loading Package : data.table v1.14.6
	Loading Package : matrixStats v0.63.0
	Loading Package : S4Vectors v0.36.1
	Loading Package : GenomicRanges v1.50.2
	Loading Package : BiocGenerics v0.44.0
	Loading Package : Matrix v1.5.3
	Loading Package : Rcpp v1.0.9
	Loading Package : SummarizedExperiment v1.28.0
	Loading Package : rhdf5 v2.42.0
here() starts at /projects/pfenninggroup/singleCell/BICCN_mouse_CATlas_snATAC-seq

Attaching package: 'here'

The following object is masked from 'package:plyr':

    here

Setting default number of Parallel threads to 8.
Setting default genome to Mm10.
Successfully loaded ArchRProject!

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                ==###########>      /                   ||
                 \\##==......\    /                     ||
            ______ =       =|__ /__                     ||      \\\
        ,--' ,----`-,__ ___/'  --,-`-===================##========>
       \               '        ##_______ _____ ,--,__,=##,__   ///
        ,    __==    ___,-,__,--'#'  ==='      `-'    | ##,-/
        -,____,---'       \\####\\________________,--\\_##,/
           ___      .______        ______  __    __  .______      
          /   \     |   _  \      /      ||  |  |  | |   _  \     
         /  ^  \    |  |_)  |    |  ,----'|  |__|  | |  |_)  |    
        /  /_\  \   |      /     |  |     |   __   | |      /     
       /  _____  \  |  |\  \\___ |  `----.|  |  |  | |  |\  \\___.
      /__/     \__\ | _| `._____| \______||__|  |__| | _| `._____|
    
Checking Inputs...
ArchR logging to : ArchRLogs/ArchR-addIterativeLSI-48fc2b8348ca-Date-2023-04-27_Time-14-03-52.log
If there is an issue, please report to github with logFile!
2023-04-27 14:03:53 : Computing Total Across All Features, 0.007 mins elapsed.
2023-04-27 14:03:59 : Computing Top Features, 0.113 mins elapsed.
###########
2023-04-27 14:04:00 : Running LSI (1 of 4) on Top Features, 0.13 mins elapsed.
###########
2023-04-27 14:04:00 : Creating Partial Matrix, 0.134 mins elapsed.

************************************************************
2023-04-27 14:04:19 : ERROR Found in .LSIPartialMatrix for  
LogFile = ArchRLogs/ArchR-addIterativeLSI-48fc2b8348ca-Date-2023-04-27_Time-14-03-52.log

<simpleError in .getPartialMatrix(ArrowFiles = ArrowFiles, featureDF = featureDF,     useMatrix = useMatrix, cellNames = cellNames, doSampleCells = FALSE,     threads = threads, verbose = FALSE, logFile = logFile): Error not all cellNames found in partialMatrix>

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

Error in .logError(e, fn = ".LSIPartialMatrix", info = "", errorList = errorList,  : 
  Exiting See Error Above
Calls: addIterativeLSI ... tryCatchList -> tryCatchOne -> <Anonymous> -> .logError
In addition: Warning message:
In mccollect(jobs) : 4 parallel jobs did not deliver results
Execution halted
slurmstepd: error: Detected 4 oom-kill event(s) in step 3426463.batch cgroup. Some of your processes may have been killed by the cgroup out-of-memory handler.