### Pipeline run code and environment:
* Command: `/home/mjs5kd/.local/bin/refgenie build mm10_cdna/kallisto_index`
* Compute host: udc-ba25-17
* Working dir: /sfs/qumulo/qproject/shefflab/deploy/rg.databio.org_full/rg.databio.org
* Outfolder: /project/shefflab/deploy/rg.databio.org_full/genomes/data/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/kallisto_index/default/_refgenie_build/
* Pipeline started at: (04-08 21:46:22) elapsed: 0.0 _TIME_
### Version log:
* Python version: 3.6.6
* Pypiper dir: `/sfs/qumulo/qhome/mjs5kd/.local/lib/python3.6/site-packages/pypiper`
* Pypiper version: 0.12.1
* Pipeline dir: `/sfs/qumulo/qhome/mjs5kd/.local/bin`
* Pipeline version: None
### Arguments passed to pipeline:
* `asset_registry_paths`: `['mm10_cdna/kallisto_index']`
* `assets`: `None`
* `command`: `build`
* `config_file`: `refgenie.yaml`
* `docker`: `False`
* `files`: `None`
* `genome`: `None`
* `genome_config`: `None`
* `genome_description`: `None`
* `logdev`: `False`
* `new_start`: `False`
* `outfolder`: `/project/shefflab/deploy/rg.databio.org_full/genomes/data`
* `params`: `None`
* `recipe`: `None`
* `recover`: `False`
* `requirements`: `False`
* `silent`: `False`
* `skip_read_lock`: `False`
* `tag_description`: `None`
* `verbosity`: `None`
* `volumes`: `None`
----------------------------------------
Target to produce: `/project/shefflab/deploy/rg.databio.org_full/genomes/data/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/kallisto_index/default/_refgenie_build/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca_kallisto_index__default.flag`
> `kallisto index -i /project/shefflab/deploy/rg.databio.org_full/genomes/data/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/kallisto_index/default/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca_kallisto_index.idx /project/shefflab/deploy/rg.databio.org_full/genomes/data/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/fasta/default/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca.fa` (27682)
[33mWARNING:[0m Skipping mount /opt/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container
[build] loading fasta file /project/shefflab/deploy/rg.databio.org_full/genomes/data/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/fasta/default/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca.fa
[build] k-mer length: 31
[build] warning: clipped off poly-A tail (longer than 10)
from 645 target sequences
[build] warning: replaced 3 non-ACGUT characters in the input sequence
with pseudorandom nucleotides
[build] counting k-mers ... done.
[build] building target de Bruijn graph ... done
[build] creating equivalence classes ... done
[build] target de Bruijn graph has 736280 contigs and contains 100745897 k-mers
Command completed. Elapsed time: 0:03:59. Running peak memory: 3.935GB.
PID: 27682; Command: kallisto; Return code: 0; Memory used: 3.935GB
> `touch /project/shefflab/deploy/rg.databio.org_full/genomes/data/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/kallisto_index/default/_refgenie_build/fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca_kallisto_index__default.flag` (28535)
Command completed. Elapsed time: 0:00:00. Running peak memory: 3.935GB.
PID: 28535; Command: touch; Return code: 0; Memory used: 0.001GB
Asset digest: a8653fdc5af32ebbb37eaf04385b4ca3
Default tag for 'fa159612d40b1bedea9a279eb24999b3d27145f9dd70dcca/kallisto_index' set to: default
### Pipeline completed. Epilogue
* Elapsed time (this run): 0:04:04
* Total elapsed time (all runs): 0:03:59
* Peak memory (this run): 3.9352 GB
* Pipeline completed time: 2021-04-08 21:50:26
Finished building 'kallisto_index' asset
Created alias directories:
- /project/shefflab/deploy/rg.databio.org_full/genomes/alias/mm10_cdna/kallisto_index/default