### Pipeline run code and environment:

*              Command:  `/home/mjs5kd/.local/bin/refgenie build hg18/fasta --files fasta=/project/shefflab/www/refgenie_refgenomes.databio.org/hg18-fasta-fasta`
*         Compute host:  udc-aw34-6c0
*          Working dir:  /sfs/qumulo/qproject/shefflab/deploy/rg.databio.org_full/rg.databio.org
*            Outfolder:  /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/_refgenie_build/
*  Pipeline started at:   (04-07 15:29:25) 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`:  `['hg18/fasta']`
*             `assets`:  `None`
*            `command`:  `build`
*        `config_file`:  `refgenie.yaml`
*             `docker`:  `False`
*              `files`:  `[['fasta=/project/shefflab/www/refgenie_refgenomes.databio.org/hg18-fasta-fasta']]`
*             `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/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/_refgenie_build/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01_fasta__default.flag`  

> `cp /project/shefflab/www/refgenie_refgenomes.databio.org/hg18-fasta-fasta /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01.fa.gz` (250339)
<pre>
</pre>
Command completed. Elapsed time: 0:00:04. Running peak memory: 0.002GB.  
  PID: 250339;	Command: cp;	Return code: 0;	Memory used: 0.002GB


> `gzip -df /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01.fa.gz` (250395)
<pre>
</pre>
Command completed. Elapsed time: 0:00:34. Running peak memory: 0.002GB.  
  PID: 250395;	Command: gzip;	Return code: 0;	Memory used: 0.001GB


> `samtools faidx /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01.fa` (250781)
<pre>
WARNING: Skipping mount /opt/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container
</pre>
Command completed. Elapsed time: 0:00:15. Running peak memory: 0.012GB.  
  PID: 250781;	Command: samtools;	Return code: 0;	Memory used: 0.012GB


> `cut -f 1,2 /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01.fa.fai > /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01.chrom.sizes` (251032)
<pre>
</pre>
Command completed. Elapsed time: 0:00:00. Running peak memory: 0.012GB.  
  PID: 251032;	Command: cut;	Return code: 0;	Memory used: 0.001GB


> `touch /project/shefflab/deploy/rg.databio.org_full/genomes/data/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta/default/_refgenie_build/9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01_fasta__default.flag` (251034)
<pre>
</pre>
Command completed. Elapsed time: 0:00:00. Running peak memory: 0.012GB.  
  PID: 251034;	Command: touch;	Return code: 0;	Memory used: 0.001GB

Asset digest: 0fc1d00b994befc9a00695b15b048af8
Default tag for '9b7fd88cae1bd01bf53760fb426e2aeb299150cc64af2b01/fasta' set to: default

### Pipeline completed. Epilogue
*        Elapsed time (this run):  0:00:59
*  Total elapsed time (all runs):  0:00:53
*         Peak memory (this run):  0.0119 GB
*        Pipeline completed time: 2021-04-07 15:30:24
Finished building 'fasta' asset
Created alias directories: 
 - /project/shefflab/deploy/rg.databio.org_full/genomes/alias/hg18/fasta/default