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Starting on       : Tue Jul  6 22:34:35 EDT 2021
Running on node   : scc-pf6
Current job ID    : 7514376
Current job name  : ExonicOnly29K
Task index number : 
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/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/bin
cellranger mkref (3.1.0)
Copyright (c) 2019 10x Genomics, Inc.  All rights reserved.
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Jul 06 22:38:15 ..... Started STAR run
Jul 06 22:38:15 ... Starting to generate Genome files
Jul 06 22:39:35 ... starting to sort  Suffix Array. This may take a long time...
Jul 06 22:39:42 ... sorting Suffix Array chunks and saving them to disk...
Jul 06 23:19:10 ... loading chunks from disk, packing SA...
Jul 06 23:19:35 ... Finished generating suffix array
Jul 06 23:19:35 ... Generating Suffix Array index
Jul 06 23:21:31 ... Completed Suffix Array index
Jul 06 23:21:31 ..... Processing annotations GTF
Jul 06 23:21:34 ..... Inserting junctions into the genome indices
Jul 06 23:27:08 ... writing Genome to disk ...
Jul 06 23:27:35 ... writing Suffix Array to disk ...
Jul 06 23:28:49 ... writing SAindex to disk
Jul 06 23:29:06 ..... Finished successfully
Creating new reference folder at /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/new_lncRNAs_reference/NewRefseqGTF/Intronic_FrBack_Exonic/ExonicOnly29K
...done

Writing genome FASTA file into reference folder...
...done

Computing hash of genome FASTA file...
...done

Indexing genome FASTA file...
...done

Writing genes GTF file into reference folder...
...done

Computing hash of genes GTF file...
...done

Writing genes index file into reference folder (may take over 10 minutes for a 3Gb genome)...
...done

Writing genome metadata JSON file into reference folder...
...done

Generating STAR genome index (may take over 8 core hours for a 3Gb genome)...
...done.

>>> Reference successfully created! <<<

You can now specify this reference on the command line:
cellranger --transcriptome=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/new_lncRNAs_reference/NewRefseqGTF/Intronic_FrBack_Exonic/ExonicOnly29K ...
Finished  .............. Tue Jul  6 23:29:06 EDT 2021