Commit bff4d3fc authored by TomKellyGenetics's avatar TomKellyGenetics
Browse files

no cloupe output listed (removed)

parent 5a0d6848
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+5 −3
Original line number Diff line number Diff line
@@ -1557,6 +1557,7 @@ if [[ $lock -eq 0 ]]; then
        if [[ $verbose  ]]; then
            echo "restore cloupe" 
        fi
        sed -i 's/#*#@include "_cloupe_stages.mro"/@include "_cloupe_stages.mro"g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
        sed -i '/output_for_cloupe/s/^#*#//g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
        sed -i '/out cloupe cloupe/ {s/^#*#//g}' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
        sed -i '/output_for_cloupe/s/null/CLOUPE_PREPROCESS.output_for_cloupe/g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro 
@@ -1567,9 +1568,10 @@ if [[ $lock -eq 0 ]]; then
        fi
#        sed -i '/output_for_cloupe/s/^#*#//g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
#        sed -i '/out cloupe cloupe/ {s/^#*#//g}' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro #
        sed -i 's/@include "_cloupe_stages.mro"/#@include "_cloupe_stages.mro"g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
        sed -i '/output_for_cloupe/s/CLOUPE_PREPROCESS\.output_for_cloupe/null/g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro 
#        sed -i '/output_for_cloupe/s/s/^/#/g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro 
#        sed -i '/out cloupe cloupe/ {s/^/#/g}' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
        sed -i '/output_for_cloupe/s/s/^/#/g' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro 
        sed -i '/out cloupe cloupe/ {s/^/#/g}' ${cellrangerpath}-cs/${cellrangerversion}/mro/*mro
    fi
    echo " ${cellrangerpath} set for $technology"