error using createArrowFiles() #1815
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sunnyyakima
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Questions / Documentation
Replies: 1 comment
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In the future, bugs / error reports should be posted to Issues. This looks like an OS / environment problem. As far as I know, we've never seen this before. Googling around seems to indicate that it may be a macOS problem. I dont think there is anything that I can do here. Unless you can prove that parallel computation otherwise works on your machine, I dont think this is related to ArchR. |
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I am using a mac
I am following the tutorial. here is the code:
addArchRThreads(threads = 6)
ArrowFiles <- createArrowFiles(
inputFiles = inputFiles,
sampleNames = names(inputFiles),
filterTSS = 4, #Dont set this too high because you can always increase later
filterFrags = 1000,
addTileMat = TRUE,
addGeneScoreMat = TRUE
)
got a lot of following
2023-01-23 08:12:51 : (scATAC_PBMC_R1 : 3 of 3) Successful creation of Arrow File, 3.965 mins elapsed.
The process has forked and you cannot use this CoreFoundation functionality safely. You MUST exec().
Break on THE_PROCESS_HAS_FORKED_AND_YOU_CANNOT_USE_THIS_COREFOUNDATION_FUNCTIONALITY___YOU_MUST_EXEC() to debug.
The process has forked and you cannot use this CoreFoundation functionality safely. You MUST exec().
Break on THE_PROCESS_HAS_FORKED_AND_YOU_CANNOT_USE_THIS_COREFOUNDATION_FUNCTIONALITY___YOU_MUST_EXEC() to debug.
.
.
.
The process has forked and you cannot use this CoreFoundation functionality safely. You MUST exec().
Break on THE_PROCESS_HAS_FORKED_AND_YOU_CANNOT_USE_THIS_COREFOUNDATION_FUNCTIONALITY___YOU_MUST_EXEC() to debug.
ArchR logging successful to : ArchRLogs/ArchR-createArrows-133c029a89338-Date-2023-01-23_Time-08-08-53.log
Warning message:
In mccollect(jobs) : 3 parallel jobs did not deliver results
Then, I changed to
addArchRThreads(threads = 1)
It seems working, but super slow.
Any suggestions? thnaks
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