### Pipeline run code and environment:
* Command: `/home/mjs5kd/.local/bin/refgenie build mm10/star_index`
* Compute host: udc-ba25-18
* 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/star_index/default/_refgenie_build/
* Pipeline started at: (04-07 18:09:39) 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/star_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/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/star_index/default/_refgenie_build/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1_star_index__default.flag`
> `mkdir -p /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/star_index/default` (21069)
Command completed. Elapsed time: 0:00:00. Running peak memory: 0.001GB.
PID: 21069; Command: mkdir; Return code: 0; Memory used: 0.001GB
> `STAR --runThreadN 8 --runMode genomeGenerate --genomeDir /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/star_index/default --genomeFastaFiles /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/fasta/default/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1.fa` (21070)
[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
Apr 07 18:09:39 ..... started STAR run
Apr 07 18:09:39 ... starting to generate Genome files
Apr 07 18:10:46 ... starting to sort Suffix Array. This may take a long time...
Apr 07 18:11:04 ... sorting Suffix Array chunks and saving them to disk...
Apr 07 20:31:21 ... loading chunks from disk, packing SA...
Apr 07 20:32:52 ... finished generating suffix array
Apr 07 20:32:52 ... generating Suffix Array index
Apr 07 20:38:04 ... completed Suffix Array index
Apr 07 20:38:04 ... writing Genome to disk ...
Apr 07 20:39:06 ... writing Suffix Array to disk ...
Apr 07 20:44:24 ... writing SAindex to disk
Apr 07 20:44:39 ..... finished successfully
Command completed. Elapsed time: 2:35:01. Running peak memory: 30.595GB.
PID: 21070; Command: STAR; Return code: 0; Memory used: 30.595GB
> `touch /project/shefflab/deploy/rg.databio.org_full/genomes/data/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/star_index/default/_refgenie_build/0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1_star_index__default.flag` (18995)
Command completed. Elapsed time: 0:00:00. Running peak memory: 30.595GB.
PID: 18995; Command: touch; Return code: 0; Memory used: 0.001GB
Asset digest: 295b143e0933be5b9ab09f00f92496a4
Default tag for '0f10d83b1050c08dd53189986f60970b92a315aa7a16a6f1/star_index' set to: default
### Pipeline completed. Epilogue
* Elapsed time (this run): 2:36:05
* Total elapsed time (all runs): 2:35:01
* Peak memory (this run): 30.5948 GB
* Pipeline completed time: 2021-04-07 20:45:44
Finished building 'star_index' asset
Created alias directories:
- /project/shefflab/deploy/rg.databio.org_full/genomes/alias/mm10/star_index/default