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aertslab / SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
http://scenic.aertslab.org
GNU General Public License v3.0
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How to sever the error with all connections are in use? #71

Closed wkkion closed 5 years ago

wkkion commented 5 years ago

Hi, I'm using the SCENIC_2_createRegulons() function and keep getting the same error: all connection are in use. The detail is: `runSCENIC_2_createRegulons(scenicOptions) 11:25 Step 2. Identifying regulons tfModulesSummary:

top5perTarget top10perTarget w005 top50perTarget top50 w001 185 291 326 885 1000 1072 11:25 RcisTarget: Calculating AUC Scoring database: [Source file: mm10refseq-r8010kb_up_and_down_tss.mc9nr.feather] 12:07 RcisTarget: Adding motif annotation Number of motifs in the initial enrichment: 781008 Number of motifs annotated to the corresponding TF: 3909 12:18 RcisTarget: Prunning targets Error in file(con, "w") : all connections are in use` I googled this error, and used closeAllConnections() before SCENIC_2_createRegulons(), but I still encounter this error in Win10. Can you help out? Thank you!

s-aibar commented 5 years ago

Dear @wkkion ,

This error usually appears when using too many cores... You can try reducing them (down to nCores=1 if needed...)