# HG changeset patch # User estrain # Date 1558223200 14400 # Node ID 0f2a700712ef737531405e8f9d232f7e4443e469 # Parent 1f4a2e7eea517c85e8dc09f4c1bac847ec439212 Uploaded diff -r 1f4a2e7eea51 -r 0f2a700712ef srst2v2.xml --- a/srst2v2.xml Sat May 18 19:32:27 2019 -0400 +++ b/srst2v2.xml Sat May 18 19:46:40 2019 -0400 @@ -1,4 +1,4 @@ - + srst2 @@ -6,6 +6,9 @@ #if $paired_conditional.sPaired == "paired" ln -s $paired_conditional.fastq1 sample_1.fastq; ln -s $paired_conditional.fastq2 sample_2.fastq; + #else if $paired_conditional.sPaired == "paired_coll" + ln -s $paired_conditional.coll.forward sample_1.fastq; + ln -s $paired_conditional.coll.reverse sample_2.fastq; #end if srst2 @@ -14,6 +17,8 @@ --input_se $paired_conditional.fastq1 #else if $paired_conditional.sPaired == "paired" --input_pe sample_1.fastq sample_2.fastq + #else if $paired_conditional.sPaired == "paired_coll" + --input_pe sample_1.fastq sample_2.fastq #end if --output srst2out @@ -76,8 +81,9 @@ - - + + + @@ -86,12 +92,15 @@ + + + - + - +