Dear Developers
Is there an existing tool or mechanism that can be used to duplicate a
"list of pairs" dataset collection, keeping the paired datasets the same
but relabeling each pair with a new identifier taken from a user
supplied file or list?
I've cobbled together my own tool to try and do something like this:
https://github.com/pjbriggs/Amplicon_analysis-galaxy/blob/77340d8bb2470a646deba4933625413fc70985d1/relabel_samples.xml
and while it works, it doesn't feel like a good solution as it creates
duplicates of the datasets from the first collection and consumes
additional disk/quota space unnecessarily. (This is particularly
undesirable as we expect that the input collections might be relatively
large numbers of FASTQ pairs e.g. 30 or more.)
Looking at some of the 'Collection Operations' tools that come with
Galaxy, it appears that these are able to create new collections without
making duplicate datasets, which seems much better. But these tools work
by directly invoking Python classes from the Galaxy core, so I don't
know if a similar approach could be used in a non-core tool.
Any advice or suggestions are very welcome! Thanks
Best wishes
Peter
--
Peter Briggs [email protected]
Bioinformatics Core Facility University of Manchester
B.1083 Michael Smith Bldg Tel: (0161) 2751482
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