### Pipeline run code and environment:

*              Command:  `/home/mjs5kd/.local/bin/refgenie build mm10/fasta --files fasta=/project/shefflab/www/refgenie_refgenomes.databio.org/mm10-fasta-fasta`
*         Compute host:  udc-ba27-28c0
*          Working dir:  /sfs/qumulo/qproject/shefflab/deploy/rg.databio.org_full/rg.databio.org
*            Outfolder:  /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/_refgenie_build/
*  Pipeline started at:   (04-07 15:29:41) 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/fasta']`
*             `assets`:  `None`
*            `command`:  `build`
*        `config_file`:  `refgenie.yaml`
*             `docker`:  `False`
*              `files`:  `[['fasta=/project/shefflab/www/refgenie_refgenomes.databio.org/mm10-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/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/_refgenie_build/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1_fasta__default.flag`  

> `cp /project/shefflab/www/refgenie_refgenomes.databio.org/mm10-fasta-fasta /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1.fa.gz` (136374)
<pre>
</pre>
Command completed. Elapsed time: 0:00:03. Running peak memory: 0.002GB.  
  PID: 136374;	Command: cp;	Return code: 0;	Memory used: 0.002GB


> `gzip -df /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1.fa.gz` (136514)
<pre>
</pre>
Command completed. Elapsed time: 0:00:30. Running peak memory: 0.002GB.  
  PID: 136514;	Command: gzip;	Return code: 0;	Memory used: 0.001GB


> `samtools faidx /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1.fa` (137610)
<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: 0:00:10. Running peak memory: 0.012GB.  
  PID: 137610;	Command: samtools;	Return code: 0;	Memory used: 0.012GB


> `cut -f 1,2 /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1.fa.fai > /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1.chrom.sizes` (137869)
<pre>
</pre>
Command completed. Elapsed time: 0:00:00. Running peak memory: 0.012GB.  
  PID: 137869;	Command: cut;	Return code: 0;	Memory used: 0.001GB


> `touch /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/_refgenie_build/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1_fasta__default.flag` (137871)
<pre>
</pre>
Command completed. Elapsed time: 0:00:00. Running peak memory: 0.012GB.  
  PID: 137871;	Command: touch;	Return code: 0;	Memory used: 0.001GB

Asset digest: 4afce2deeceae65b4c0987b9297cf441
Waiting for file lock: /project/shefflab/deploy/rg.databio.org_full/rg.databio.org/config/lock.refgenie_config.yaml ......... File unlocked
Default tag for '0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta' set to: default

### Pipeline completed. Epilogue
*        Elapsed time (this run):  0:01:00
*  Total elapsed time (all runs):  0:00:43
*         Peak memory (this run):  0.0121 GB
*        Pipeline completed time: 2021-04-07 15:30:41
Finished building 'fasta' asset
Created alias directories: 
 - /project/shefflab/deploy/rg.databio.org_full/genomes/alias/mm10/fasta/default