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mkdir -p ${sample_id}/spladder_out/spladder |
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mkdir -p ${sample_id}/spladder_out/spladder |
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ln -s ${bam}/*.bam$ ./ |
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ln -s ${bam}/*.bam ./ |
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ls ./ | grep bam$ > alignment.txt |
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ls ./ | grep bam$ > alignment.txt |
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ln -s ${bam}/*.bai$ ./ |
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ln -s ${bam}/*.bai ./ |
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ls ./ | grep bai$ > alignment_bai.txt |
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ls ./ | grep bai$ > alignment_bai.txt |
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ln -s ${pickle}/*.pickle ${sample_id}/spladder_out/spladder/ |
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ln -s ${pickle}/*.pickle ${sample_id}/spladder_out/spladder/ |
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ls ${sample_id}/spladder_out/spladder/ >> pickle.txt |
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ls ${sample_id}/spladder_out/spladder/ >> pickle.txt |