update test scripts

#!/bin/bash

# run tests in home directory (writeable)

#cd ~

# run tests in universc directory

# run tests in universc directory (parent of test directory)

cd $(dirname ${BASH_SOURCE[0]})/..

pwd

# used to export to PATH for testing on SGE server

#export PATH=${HOME}/local/bin/cellranger-3.0.2:$PATH

export PATH=${HOME}/local/bin/cellranger-3.0.2:$PATH

cellrangerversion=`cellranger count --version | head -n 2 | tail -n 1 | cut -f2 -d'(' | cut -f1 -d')'`

cellrangerpath=`which cellranger`

bash launch_universc.sh -t "10x" --setup

## test 10x data

# nzip input data

# unzip input data

if [[ ! -f ${cellrangerpath}-cs/${cellrangerversion}/lib/python/cellranger/barcodes/3M-february-2018.txt.gz ]]; then

    gzip -f ${cellrangerpath}-cs/${cellrangerversion}/lib/python/cellranger/barcodes/3M-february-2018.txt

fi

#!/bin/bash

# run tests in home directory (writeable)

#cd ~

# run tests in universc directory

# run tests in universc directory (parent of test directory)

cd $(dirname ${BASH_SOURCE[0]})/..

pwd

# used to export to PATH for testing on SGE server

#export PATH=${HOME}/local/bin/cellranger-3.0.2:$PATH

export PATH=${HOME}/local/bin/cellranger-3.0.2:$PATH

cellrangerversion=`cellranger count --version | head -n 2 | tail -n 1 | cut -f2 -d'(' | cut -f1 -d')'`

cellrangerpath=`which cellranger`