Mercurial > repos > petr-novak > re_utils
view test_run1.sh @ 12:6b7d31026d1c draft
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author | petr-novak |
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date | Tue, 04 Feb 2020 08:38:22 -0500 |
parents | 378565f5a875 |
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#!/bin/sh # same like galaxy test: ./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 echo "single fastq filtering with defaults" ./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 echo "single fastq filtering with with sampling" ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o tmp/test2a.fasta -G tmp/test2a.png -c 10 -N 0 -n 500 echo "single fastq filtering with with sampling" ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o tmp/test2b.fasta -G tmp/test2b.png -c 10 -N 0 -n 647 echo "single fastq filtering with with sampling" ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o tmp/test2c.fasta -G tmp/test2c.png -c 10 -N 0 -n 839 echo "single fastq filtering with with sampling" ./single_fastq_filtering_wrapper.sh -a test_data/ERR215189_1_part.fastq.gz -o tmp/test2d.fasta -G tmp/test2d.png -c 10 -N 0 -n 911 echo "single fastq filtering with contaminant removing" ./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