-----------------------
Start of variable list:
-----------------------
Sample_ID:
MANFHet_3
Dataset_DIR:
/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/GSE123116_fullpipeline_run
Sample_Labels_DIR:
/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/GSE123116_fullpipeline_run/Scripts/00_Setup_Pipeline
-----------------------
End of variable list
-----------------------
==========================================================
Starting on : Wed Jul 17 17:55:11 EDT 2019
Running on node : scc-tl2
Current directory : /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/GSE123116_fullpipeline_run/Scripts/03_Read_Length
Current job ID : 7774867
Current job name : Step_03_MANFHet_3
Task index number : undefined
Parameter for multiple cores : 1
==========================================================

Change dir to scratch directory


Print scratch directory location:

/scratch/7774867.1.linga

Loading required modules...


List files in scratch directory:

total 8.9G
drwx------   2 varsha97 waxmanlab 4.0K Jul 17 17:59 .
drwxrwxrwt. 10 root     root      4.0K Jul 17 17:55 ..
-rw-r--r--   1 varsha97 waxmanlab 4.3G Jul 17 17:59 SRR8261644_1.fastq.gz
-rw-r--r--   1 varsha97 waxmanlab 4.7G Jul 17 18:03 SRR8261644_2.fastq.gz

Starting to run my commands


Unzip files:


Finished unzipping


Starting Read Length


Processing SRR8261644_1.fastq


Processing SRR8261644_2.fastq


Ending Read Length


List files in scratch

total 39G
drwx------   2 varsha97 waxmanlab 4.0K Jul 17 18:10 .
drwxrwxrwt. 10 root     root      4.0K Jul 17 17:55 ..
-rw-r--r--   1 varsha97 waxmanlab  20G Jul 17 17:59 SRR8261644_1.fastq
-rw-r--r--   1 varsha97 waxmanlab  20G Jul 17 18:03 SRR8261644_2.fastq
==========================================================
Finished on : Wed Jul 17 18:12:51 EDT 2019
0 hours, 17 minutes and 40 seconds elapsed.
==========================================================