# HG changeset patch
# User bgruening
# Date 1652374430 0
# Node ID 20752d9c9c9f1e8ad69bdf0a35c4647110329589
# Parent  3d444b76a9521e65d6dc7cb9c5fff2c32a20d57c
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/10x_bamtofastq commit 60c20816923303efe1185c76f38a5b9a6fb8ce1c

diff -r 3d444b76a952 -r 20752d9c9c9f 10x_bamtofastq.xml
--- a/10x_bamtofastq.xml	Tue May 10 12:01:43 2022 +0000
+++ b/10x_bamtofastq.xml	Thu May 12 16:53:50 2022 +0000
@@ -10,7 +10,7 @@
         $produced_from
         $tenx_bam
         outdir &&
-        mv outdir/*/*.fastq.gz outdir
+        cd outdir; for i in */*.fastq.gz;do mv \$i \${i/\//_};done
     ]]></command>
     <inputs>
         <param format="bam" name="tenx_bam" type="data" label="10X Genomics BAM file to convert to FASTQ"/>
@@ -51,9 +51,9 @@
         <test>
             <param name="tenx_bam" value="A10.sub.bam"/>
             <output_collection name="fastq_collection" type="list" count="3">
-                <element name="bamtofastq_S1_L007_I1_001" file="bamtofastq_S1_L007_I1_001.fastq.gz"/>
-                <element name="bamtofastq_S1_L007_R1_001" file="bamtofastq_S1_L007_R1_001.fastq.gz"/>
-                <element name="bamtofastq_S1_L007_R2_001" file="bamtofastq_S1_L007_R2_001.fastq.gz"/>
+                <element name="A10_MissingLibrary_1_CB54YACXX_bamtofastq_S1_L007_I1_001" file="bamtofastq_S1_L007_I1_001.fastq.gz"/>
+                <element name="A10_MissingLibrary_1_CB54YACXX_bamtofastq_S1_L007_R1_001" file="bamtofastq_S1_L007_R1_001.fastq.gz"/>
+                <element name="A10_MissingLibrary_1_CB54YACXX_bamtofastq_S1_L007_R2_001" file="bamtofastq_S1_L007_R2_001.fastq.gz"/>
             </output_collection>
         </test>
     </tests>