diff monorail.xml @ 32:13df910d0683 draft

Uploaded

--- a/monorail.xml	Thu Nov 14 07:42:04 2019 +0000
+++ b/monorail.xml	Tue Nov 19 03:02:23 2019 +0000
@@ -3,7 +3,7 @@
     <requirements>
         <requirement type="package" version="1.9">samtools</requirement>
         <requirement type="package" version="2.7.3a">star</requirement>
-        <requirement type="package" version="0.2.6">bamcount</requirement>
+        <requirement type="package" version="0.4.0">bamcount</requirement>
         <requirement type="package" version="5.4.0">snakemake-minimal</requirement>
         <requirement type="package" version="1.3.3">zstd</requirement>
         <requirement type="package" version="1.3">seqtk</requirement>
@@ -80,12 +80,13 @@
     </inputs>
     <outputs>
         <data format="txt" name="auc" label="${tool.name} on ${on_string}: AUC" from_work_dir="bamcount_auc.tsv"/>
+        <data format="txt" name="frag" label="${tool.name} on ${on_string}: Fragment Distribution" from_work_dir="bamcount_frag.tsv"/>
+        <data format="interval" name="splice_junctions" label="${tool.name} on ${on_string}: splice junctions" from_work_dir="SJ.out.tab"/>
         <!-- 
         <data format="txt" name="output_log" label="${tool.name} on ${on_string}: log" from_work_dir="Log.final.out"/>
         <data format="txt" name="auc" label="${tool.name} on ${on_string}: AUC" from_work_dir="bc.auc.tsv"/>
         <data format="txt" name="bc_log" label="${tool.name} on ${on_string}: bamcount log" from_work_dir="bc.log"/>
         <data format="interval" name="chimeric_junctions" label="${tool.name} on ${on_string}: chimeric junctions" from_work_dir="Chimeric.out.junction"/>
-        <data format="interval" name="splice_junctions" label="${tool.name} on ${on_string}: splice junctions.bed" from_work_dir="SJ.out.tab"/>
         <data name="mapped_reads" format="bam" label="${tool.name} on ${on_string}: mapped.bam" from_work_dir="sorted.bam"/>
         <data name="mapped_reads_index" format="bai" label="${tool.name} on ${on_string}: mapped.bam.bai" from_work_dir="sorted.bam.bai"/>
         -->