Mercurial > repos > sanbi-uwc > novo_align
changeset 25:5aa122947f26 draft
planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/novo_align commit 15efb6caef65e6d7b307bbf5e2b6b30f968f27c7
author | sanbi-uwc |
---|---|
date | Mon, 07 May 2018 06:06:13 -0400 |
parents | 6b5b34b321a5 |
children | 709eb84d9927 |
files | novo_align.xml |
diffstat | 1 files changed, 2 insertions(+), 3 deletions(-) [+] |
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--- a/novo_align.xml Wed May 02 06:52:04 2018 -0400 +++ b/novo_align.xml Mon May 07 06:06:13 2018 -0400 @@ -7,9 +7,8 @@ <requirement type="package" version="04.2016">novoalign-license</requirement> </requirements> <command detect_errors="aggressive"><![CDATA[ - #set $paired_input_type = $paired_end.paired_input_type_conditional.paired_input_type #if $paired_end.is_paired_end - #if $paired_input_type == "pair_of_files" + #if $paired_end.paired_input_type_conditional.paired_input_type == "pair_of_files" #if $paired_end.paired_input_type_conditional.fastq_r1_in.metadata.is_gzipped ln -s "${$paired_end.paired_input_type_conditional.fastq_r1_in}" ./input_mate1.gz && ln -s "${$paired_end.paired_input_type_conditional.fastq_r2_in}" ./input_mate2.gz && @@ -51,7 +50,7 @@ reference.nix #end if #if $paired_end.is_paired_end - #if $paired_input_type == "pair_of_files" + #if $paired_end.paired_input_type_conditional.paired_input_type == "pair_of_files" #if $paired_end.paired_input_type_conditional.fastq_r1_in.metadata.is_gzipped --forward_file ./input_mate1.gz --reverse_file ./input_mate2.gz