Mercurial > repos > estrain > srst2
diff srst2v2.xml @ 5:53b629d3da68 draft
Uploaded
| author | estrain |
|---|---|
| date | Mon, 20 May 2019 13:55:36 -0400 |
| parents | 65cb7bb11e6b |
| children | ba3ddf429854 |
line wrap: on
line diff
--- a/srst2v2.xml Sun May 19 11:24:38 2019 -0400 +++ b/srst2v2.xml Mon May 20 13:55:36 2019 -0400 @@ -15,7 +15,7 @@ ln -s $paired_conditional.fastq1 sample_1.fastq; ln -s $paired_conditional.fastq2 sample_2.fastq; #end if - #else if $paired_conditional.sPaired == "paired_coll" + #else if $paired_conditional.sPaired == "paired_coll" #if $paired_conditional.coll.forward.is_of_type("fastq.gz") zcat $paired_conditional.coll.forward > sample_1.fastq; zcat $paired_conditional.coll.reverse > sample_2.fastq; @@ -26,7 +26,7 @@ ln -s $paired_conditional.coll.forward sample_1.fastq; ln -s $paired_conditional.coll.reverse sample_2.fastq; #end if - #else if $paired_conditional.sPaired == "single" + #else if $paired_conditional.sPaired == "single" #if $paired_conditional.fastq1.is_of_type("fastq.gz") zcat $paired_conditional.fastq1 > sample_1.fastq; #else if $paired_conditional.fastq1.is_of_type("fastqsanger.gz") @@ -39,7 +39,7 @@ srst2 #if $paired_conditional.sPaired == "single" - --input_se sample_1.fastq1 + --input_se sample_1.fastq #else --input_pe sample_1.fastq sample_2.fastq #end if