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1 #!/bin/sh
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2
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3 # same like galaxy test:
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4
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5 ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o test_data/single_output.fasta -G test_data/single_output.png -c 10 -N 0 -p 95
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6
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7
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8 echo "single fastq filtering with defaults"
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9 ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o tmp/test1.fasta -G tmp/test1.png -c 10 -N 0
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10
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11 echo "single fastq filtering with with sampling"
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12 ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o tmp/test2.fasta -G tmp/test2.png -c 10 -N 0 -n 500
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13
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14 echo "single fastq filtering with contaminant removing"
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15 ./single_fastq_filtering_wrapper.sh -F tool_data/organele_ref_and_phi-X174.fasta -a test_data/ERR215189_1_part.fastq.gz -o tmp/test3.fasta -G tmp/test3.png -c 10 -N 0
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16
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17
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