# HG changeset patch
# User fubar
# Date 1718350763 0
# Node ID 460f523c8ff43d5304c5338a57d9699ff25bdcd6
# Parent  49c6f715bc82bc52331409a62286206130560177
planemo upload for repository https://www.encodeproject.org/software/bedgraphtobigwig/

diff -r 49c6f715bc82 -r 460f523c8ff4 bam_bed_gff_to_bigwig.xml
--- a/bam_bed_gff_to_bigwig.xml	Fri Jun 14 06:47:20 2024 +0000
+++ b/bam_bed_gff_to_bigwig.xml	Fri Jun 14 07:39:23 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="bbgtobigwig" name="Convert BAM/BED/GFF to BigWig" version="0.1" profile="22.05"> 
+<tool id="bbgtobigwig" name="Convert BAM BED GFF to BigWig" version="0.1" profile="22.05"> 
     <requirements>
         <requirement type="package" version="455">ucsc-bedgraphtobigwig</requirement>
         <requirement type="package" version="2.31.1">bedtools</requirement>
@@ -93,7 +93,9 @@
 
    Estimates coverage of a reference genome for bam, bed or gff as a bigwig, suitable for viewing in JBrowse2 or other browser.
  
-   If the input does not have a dbkey, a chromosome lengths file must be provided. The actual reference is not needed.
+   A chromosome lengths file must be provided if the input has a missing dbkey='?' on the pencil (edit attributes) tab. 
+   
+   The actual reference is not needed. The Compute sequence length tool can generate the lengths file.
  
    This can be useful in workflows with assemblies in progress before a stable reference is available for a custom or built in reference dbkey.