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Use a more robust check for process completion #1

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13 changes: 6 additions & 7 deletions Denovo_Signature_Discovery/scripts/1_Signature_derivation_from_input_matrix.sh
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Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
#!
#!/bin/bash

#### Deriving signatures from input matrix

Expand Down Expand Up @@ -73,21 +73,20 @@ for ITER in $(seq 1 $ITERS); do

echo $ITER

pids=()
for PAR in $(seq 1 $PARALLEL); do

UUID=$(cat /dev/urandom | tr -dc 'A-Z0-9' | fold -w 6 | head -n 1)
OUTPATH="${UUID}"
mkdir -p $OUTPATH
python $SCRIPTPATH --data $INPUTMATRIX --max_iter=$MAXITER --output_dir $OUTPATH $REGULARISATIONS --labeled --K0 $K0 > ${OUTPATH}/${UUID}_log.txt &
pids[${PAR}]=$!

done

sleep 4
PYRUN=`nvidia-smi | grep -c python`
while [[ $PYRUN != 0 ]]; do
sleep 2
PYRUN=`nvidia-smi | grep -c python`
for pid in ${pids[*]}; do
wait $pid
done

done
echo "NMF finished. Goodbye!"
echo "NMF finished. Goodbye!"