@@ -16,9 +16,9 @@ task spladder_merge { | |||
mkdir -p ${sample_id}/spladder_out/spladder | |||
ln -s ${bam}/*.bam$ ./ | |||
ln -s ${bam}/*.bam ./ | |||
ls ./ | grep bam$ > alignment.txt | |||
ln -s ${bam}/*.bai$ ./ | |||
ln -s ${bam}/*.bai ./ | |||
ls ./ | grep bai$ > alignment_bai.txt | |||
ln -s ${pickle}/*.pickle ${sample_id}/spladder_out/spladder/ | |||
ls ${sample_id}/spladder_out/spladder/ >> pickle.txt |