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I'm attempting to translate the Galaxy Tool Trimmomatic, but the translation fails because of a duplicate values error on the output collections. Here is the final error message: Exception: There are 2 duplicate values in trimmomatic's outputs: out_forward1, out_reverse1
The relevant tool output definition (shown below) shows that the duplicate values seem to come from data within separate collections.
<collectionname="fastq_out_paired"type="paired"label="${tool.name} on ${on_string}: paired">
<filter>readtype['single_or_paired'] == "collection"</filter>
<dataname="forward"label="${tool.name} on ${readtype.fastq_pair.forward.name} (R1 paired)"format_source="fastq_pair['forward']"/>
<dataname="reverse"label="${tool.name} on ${readtype.fastq_pair.reverse.name} (R2 paired)"format_source="fastq_pair['reverse']"/>
</collection>
<collectionname="fastq_out_unpaired"type="paired"label="${tool.name} on ${on_string}: unpaired">
<filter>readtype['single_or_paired'] == "collection"</filter>
<dataname="forward"label="${tool.name} on ${readtype.fastq_pair.forward.name} (R1 unpaired)"format_source="fastq_pair['forward']"/>
<dataname="reverse"label="${tool.name} on ${readtype.fastq_pair.reverse.name} (R2 unpaired)"format_source="fastq_pair['reverse']"/>
</collection>
Is there an issue with the parsing of a Galaxy tool of this form?
The text was updated successfully, but these errors were encountered:
I'm attempting to translate the Galaxy Tool Trimmomatic, but the translation fails because of a duplicate values error on the output collections. Here is the final error message:
Exception: There are 2 duplicate values in trimmomatic's outputs: out_forward1, out_reverse1
The relevant tool output definition (shown below) shows that the duplicate values seem to come from data within separate collections.
Is there an issue with the parsing of a Galaxy tool of this form?
The text was updated successfully, but these errors were encountered: