1<!-- Single reads, two datasets -->
2<multi-test>
3    <remove-temp-dir url="bwa-mem4"/>
4    <create-temp-dir url="bwa-mem4"/>
5    <load-document index="doc" url="e_coli/e_coli_cut.fa" io="local_file" format="fasta"/>
6    <save-document doc="doc" url="bwa-mem4/e_coli_cut.fa" io="local_file" format="fasta"/>
7    <run-cmdline
8            task="!common_data_dir!bwa/workflow/bwa-mem.uwl"
9            ref="!tmp_data_dir!bwa-mem4/e_coli_cut.fa"
10            out_dir="!tmp_data_dir!bwa-mem4"
11            in="!common_data_dir!e_coli/e_coli_reads/e_coli_1_1.fastq;;e_coli/e_coli_reads/e_coli_1_2.fastq"
12    />
13    <compare-sam-by-length file1="bwa-mem4/bwa/out.sam" file2="bwa/workflow/mem-single1_1.sam"/>
14    <compare-sam-by-length file1="bwa-mem4/bwa_1/out.sam" file2="bwa/workflow/mem-single1_2.sam"/>
15    <remove-temp-dir url="bwa-mem4"/>
16</multi-test>
17