icaoberg

Bootstrap: docker
From: spack/ubuntu-bionic

%labels
    MAINTAINER icaoberg
    EMAIL icaoberg@psc.edu
    WEBSITE http://github.com/icaoberg/singularity-<PACKAGE-NAME>
    COPYRIGHT Copyright © 2021 Pittsburgh Supercomputing Center. All Rights Reserved. 
    VERSION <PACKAGE-VERSION>

icaoberg

#!/bin/bash

grep -v -xFf A.tsv B.tsv

icaoberg

#!/bin/bash

watch "scontrol show jobid $1 | grep StdOut | cut -d"=" -f2  | xargs tail -n 25"

icaoberg

#!/bin/bash

# @icaoberg 20/02/2020
# This script will
# * Download and extract a pre-release version of CellOrganizer v2.9.0
# * Run demo2D11. A training demo created for Sergiu Sanielevici
#
# For more information about CellOrganizer, visit the last release documentation
# http://www.cellorganizer.org/docs/2.8.1/
#

icaoberg

# icaoberg - this example is fork that uses a bedtools in a Singularity container
CONTAINER=../../singularity-bedtools.simg

echo "chr1	10	50	10" > a.bed
echo "chr1	20	40	20" > b.bed
echo "chr1	30	33	30" > c.bed

# Find the sub-intervals shared and unique to each file.
if [ -f $CONTAINER ]; then
	singularity run --app bedtools $CONTAINER multiinter -i a.bed b.bed c.bed | column -t

icaoberg

*.txt
*.bedg

icaoberg

#!/bin/bash

shopt -s nullglob

FILE=$1

if [ -f $FILE ]; then
     mv -v "$FILE" $(uuidgen).${FILE##*.}
fi

icaoberg

!/bin/bash

# icaoberg yes, i know there are better cleaner ways...

task project:$1 list | grep tasks | cut -d" " -f 1 | sed '/^[[:space:]]*$/d' | awk '{$1=$1;print}'

icaoberg

Bootstrap: docker
From: ubuntu:16.04

IncludeCmd: yes

%labels
  Maintainer icaoberg AT alumni DOT cmu DOT edu
  Version v1.0

%runscript

icaoberg

#!/bin/bash

for F in *.webp
do
  dwebp $F -o $F.png
done