Mercurial > repos > bgruening > 10x_bamtofastq
diff 10x_bamtofastq.xml @ 1:f71fd828c126 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/10x_bamtofastq commit 60c20816923303efe1185c76f38a5b9a6fb8ce1c
| author | bgruening |
|---|---|
| date | Thu, 12 May 2022 16:54:20 +0000 |
| parents | 110076d77197 |
| children |
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--- a/10x_bamtofastq.xml Tue May 10 12:02:15 2022 +0000 +++ b/10x_bamtofastq.xml Thu May 12 16:54:20 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>