Commit 2fd1bd76 authored by nchernia's avatar nchernia
Browse files

Added updated check that looks for the early exit tag. Need to add into Juicer... 

Added updated check that looks for the early exit tag. Need to add into Juicer versions as well, so that check is called with that flag in early exit
parent 65e0990d

AWS/scripts/check.sh

+6 −1
Changes for AWS/scripts/check.sh: 6 added lines, 1 removed line.
Original line number Diff line number Diff line
@@ -61,7 +61,12 @@ then 
    exit 1

fi



if [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

if [ -n "$early" ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

    echo "Check ${outputdir} for results"

elif [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

CPU/common/check.sh

+6 −1
Changes for CPU/common/check.sh: 6 added lines, 1 removed line.
Original line number Diff line number Diff line
@@ -61,7 +61,12 @@ then 
    exit 1

fi



if [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

if [ -n "$early" ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

    echo "Check ${outputdir} for results"

elif [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

LSF/scripts/check.sh

+6 −1
Changes for LSF/scripts/check.sh: 6 added lines, 1 removed line.
Original line number Diff line number Diff line
@@ -61,7 +61,12 @@ then 
    exit 1

fi



if [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

if [ -n "$early" ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

    echo "Check ${outputdir} for results"

elif [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

SLURM/scripts/check.sh

+6 −1
Changes for SLURM/scripts/check.sh: 6 added lines, 1 removed line.
Original line number Diff line number Diff line
@@ -61,7 +61,12 @@ then 
    exit 1

fi



if [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

if [ -n "$early" ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

    echo "Check ${outputdir} for results"

elif [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

UGER/scripts/check.sh

+6 −1
Changes for UGER/scripts/check.sh: 6 added lines, 1 removed line.
Original line number Diff line number Diff line
@@ -61,7 +61,12 @@ then 
    exit 1

fi



if [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

if [ -n "$early" ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

    echo "Check ${outputdir} for results"

elif [ -f ${outputdir}/inter.hic ] && [ -s ${outputdir}/inter.hic ] && [ -f ${outputdir}/inter_30.hic ] && [ -s ${outputdir}/inter_30.hic ]

then

    echo "(-: Pipeline successfully completed (-:";

    echo "Run cleanup.sh to remove the splits directory";

CRA Git | Maintained and supported by SUSTech CRA and CCSE