singularity singularity-2.6.1 is located under /share/pkg/singularity/singularity-2.6.1
WARNING: Non existent bind point (directory) in container: '/lsf'
WARNING: Non existent bind point (directory) in container: '/farline'
WARNING: Not mounting requested bind point (already mounted in container): /project
WARNING: Not mounting requested bind point (already mounted in container): /share
['/usr/bin/cellranger-6.0.1/bin/rna/mkref', '--genome=GRCz11_v4.3.2_cellranger_v6', '--fasta=danRer11.primary.fa', '--genes=V4.3.2.validated.gtf', '--ref-version=1.0.0']
May 25 01:55:00 ..... started STAR run
May 25 01:55:00 ... starting to generate Genome files
May 25 01:56:59 ... starting to sort Suffix Array. This may take a long time...
May 25 01:57:13 ... sorting Suffix Array chunks and saving them to disk...
May 25 02:42:20 ... loading chunks from disk, packing SA...
May 25 02:43:00 ... finished generating suffix array
May 25 02:43:00 ... generating Suffix Array index
May 25 02:46:07 ... completed Suffix Array index
May 25 02:46:07 ..... processing annotations GTF
May 25 02:46:43 ..... inserting junctions into the genome indices
May 25 02:59:52 ... writing Genome to disk ...
May 25 03:00:03 ... writing Suffix Array to disk ...
May 25 03:00:44 ... writing SAindex to disk
May 25 03:00:55 ..... finished successfully
Creating new reference folder at /share/data/umw_biocore/dnext_data/genome_data_other/cellranger/zebrafish/GRCz11_v4.3.2_cellranger_v6/GRCz11_v4.3.2_cellranger_v6
...done

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

Indexing genome FASTA file...
...done

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

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

Writing genome metadata JSON file into reference folder...
Computing hash of genome FASTA file...
...done

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

...done

>>> Reference successfully created! <<<

You can now specify this reference on the command line:
cellranger --transcriptome=/share/data/umw_biocore/dnext_data/genome_data_other/cellranger/zebrafish/GRCz11_v4.3.2_cellranger_v6/GRCz11_v4.3.2_cellranger_v6 ...

------------------------------------------------------------
Sender: LSF System <lsfadmin@c08b03>
Subject: Job 9753479: <module load singularity/singularity-2.6.1 && cd /share/data/umw_biocore/genome_data/cellranger/zebrafish/GRCz11_v4.3.2_cellranger_v6 && singularity exec  -B /project:/project -B /share:/share  /share/data/umw_biocore/dnext_data/singularity/UMMS-Biocore-singularity-cellranger-v4.simg cellranger mkref --genome=GRCz11_v4.3.2_cellranger_v6 --fasta=danRer11.primary.fa --genes=V4.3.2.validated.gtf --ref-version=1.0.0> in cluster <umghpcc> Done

Job <module load singularity/singularity-2.6.1 && cd /share/data/umw_biocore/genome_data/cellranger/zebrafish/GRCz11_v4.3.2_cellranger_v6 && singularity exec  -B /project:/project -B /share:/share  /share/data/umw_biocore/dnext_data/singularity/UMMS-Biocore-singularity-cellranger-v4.simg cellranger mkref --genome=GRCz11_v4.3.2_cellranger_v6 --fasta=danRer11.primary.fa --genes=V4.3.2.validated.gtf --ref-version=1.0.0> was submitted from host <ghpcc06> by user <gxy11w> in cluster <umghpcc> at Mon May 24 21:52:17 2021
Job was executed on host(s) <c08b03>, in queue <long>, as user <gxy11w> in cluster <umghpcc> at Mon May 24 21:52:18 2021
</home/gxy11w> was used as the home directory.
</share/data/umw_biocore/genome_data/cellranger/zebrafish/GRCz11_v4.3.2_cellranger_v6> was used as the working directory.
Started at Mon May 24 21:52:18 2021
Terminated at Mon May 24 23:02:15 2021
Results reported at Mon May 24 23:02:15 2021

Your job looked like:

------------------------------------------------------------
# LSBATCH: User input
module load singularity/singularity-2.6.1 && cd /share/data/umw_biocore/genome_data/cellranger/zebrafish/GRCz11_v4.3.2_cellranger_v6 && singularity exec  -B /project:/project -B /share:/share  /share/data/umw_biocore/dnext_data/singularity/UMMS-Biocore-singularity-cellranger-v4.simg cellranger mkref --genome=GRCz11_v4.3.2_cellranger_v6 --fasta=danRer11.primary.fa --genes=V4.3.2.validated.gtf --ref-version=1.0.0
------------------------------------------------------------

Successfully completed.

Resource usage summary:

    CPU time :                                   3991.10 sec.
    Max Memory :                                 19022 MB
    Average Memory :                             10747.39 MB
    Total Requested Memory :                     20048.00 MB
    Delta Memory :                               1026.00 MB
    Max Swap :                                   -
    Max Processes :                              6
    Max Threads :                                7
    Run time :                                   4204 sec.
    Turnaround time :                            4198 sec.

The output (if any) is above this job summary.