Process "trimming" doesnt provide required input for process "qiime_import" about ampliseq HOT 5 CLOSED

Part of the problem remains after commit 3d96744
Qiime import is now using trimmed.* filenames which leads to sample names with prefix "trimmed.". Therefore the sample names are not matching the ID's in the metadatafile and several processes fail.

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Solved by publishing properly named symlinks for process "qiime_import" by process "trimming"

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Problem: This can fail if its really using the publishDir directive and we should use dynamic output file names instead. I'll have a look and update this accordingly. Directly using files in paths such as $PWD is not working reliably...

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I guess I'll have to find a way to rename files accordingly to metadata... or stick strictly to using the names of the metadata....

Workaround would also be to create a directory, move the trimmed files there with the same name and use these for the next step.

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Can confirm this works now :-) Its just not possible to store the same file names in the same work directory, so I create a temporary directory in our work directory for each trimming process in fec5d44 and push the trimmed files (with the same name!) into the next step :-)

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