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fix missing make_info file direct
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Chienchi Lo committed Jan 28, 2023
1 parent 2e334d2 commit 2729674
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion jgi_assembly.wdl
Original file line number Diff line number Diff line change
Expand Up @@ -121,7 +121,7 @@ task make_info_file {
spades_version=`grep 'SPAdes version' ${assy_info} | awk '{print $3}'`
echo -e "The workflow takes paired-end reads runs error correction by bbcms.sh (BBTools(1) version $bbtools_version)." > ${prefix}_metaAsm.info
echo -e "The clean reads are assembled by metaSpades(2) version $spades_version with parameters, --only-assembler -k 33,55,77,99,127 --meta" >> ${prefix}_metaAsm.info
echo -e "After assembly, Contigs and Scaffolds are consumed by the *create_agp* task to rename the FASTA header and generate an AGP format (https://www.ncbi.nlm.nih.gov/assembly/agp/AGP_Specification/) file which describes the assembly"
echo -e "After assembly, Contigs and Scaffolds are consumed by the *create_agp* task to rename the FASTA header and generate an AGP format (https://www.ncbi.nlm.nih.gov/assembly/agp/AGP_Specification/) file which describes the assembly" >> ${prefix}_metaAsm.info
echo -e "In the end, the reads are mapped back to contigs by bbmap (BBTools(1) version $bbtools_version) for coverage information." >> ${prefix}_metaAsm.info
echo -e "\n(1) B. Bushnell: BBTools software package, http://bbtools.jgi.doe.gov/" >> ${prefix}_metaAsm.info
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