Mercurial > repos > petr-novak > re_utils

comparison test_run1.sh @ 0:a4cd8608ef6b draft

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author petr-novak
date Mon, 01 Apr 2019 07:56:36 -0400
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children 378565f5a875
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-1:000000000000 0:a4cd8608ef6b
1 #!/bin/sh
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3 # same like galaxy test:
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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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8 echo "single fastq filtering with defaults"
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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11 echo "single fastq filtering with with sampling"
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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14 echo "single fastq filtering with contaminant removing"
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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