Mercurial > repos > jbrayet > annotategenes_1_0_docker

comparison annotateGenes_wrapper.sh @ 7:83d4899403b0 draft default tip

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author jbrayet
date Tue, 05 Jan 2016 07:22:47 -0500
parents 41170790291b
children
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6:6a818827ed9d 7:83d4899403b0
131 do 131 do
132 perl $DOCKER_PATH/geneAnnotation.pl -HMmode 0 -g $noIdenticalTranscPath/$GENOME.noIdenticalTransc.txt -tf $CONTROLFILE.tmp$i -o $CONTROLSTAT$i -lp $LEFTPROM -rightp $RIGHTPROM -enh $ENH -dg $DOWNGENE >>$LOG 2>> $LOGTMP 132 perl $DOCKER_PATH/geneAnnotation.pl -HMmode 0 -g $noIdenticalTranscPath/$GENOME.noIdenticalTransc.txt -tf $CONTROLFILE.tmp$i -o $CONTROLSTAT$i -lp $LEFTPROM -rightp $RIGHTPROM -enh $ENH -dg $DOWNGENE >>$LOG 2>> $LOGTMP
133 done 133 done
134 134
135 fi 135 fi
136 echo "3: cat $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $CONTROLSTAT $PDF $BOOTSTRAP " >>$LOGTMP 136 echo "3: $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $CONTROLSTAT $PDF $BOOTSTRAP " >>$LOGTMP
137 cat $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $CONTROLSTAT $PDF $BOOTSTRAP 2>>$LOGTMP >>$LOGTMP 137 $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $CONTROLSTAT $PDF $BOOTSTRAP 2>>$LOGTMP >>$LOGTMP
138 else 138 else
139 echo "4: cat $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $PDF" >>$LOGTMP 139 echo "4: $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $PDF" >>$LOGTMP
140 cat $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $PDF 2>>$LOGTMP >>$LOGTMP 140 $R_PATH $DOCKER_PATH/geneDist.R --args $OUTSTAT $OUTPUT $LOG $PDF 2>>$LOGTMP >>$LOGTMP
141 fi 141 fi
142 142
143 if [ -r $LOGTMP ]; then 143 if [ -r $LOGTMP ]; then
144 rm $LOGTMP 144 rm $LOGTMP
145 fi 145 fi