Hi, I am using QIIME2-2017.12 I am apparently exceptionally dense when using Gneiss, as I have encountered yet another issue. Before running Gneiss, I am filtering my dataset down to include just one set of well matched case and control subjects using a single extraction method (so I exclude seve…

Hi @willowblade . The error thrown seems to point to a mismatch issue between the FeatureTable and the Metadata sizes. Could you report the number of samples within the FeatureTable and the Metadata? It may also worthwhile to post the taxa file, biom table, tree, metadata to reproduce this issue.

Hi @mortonjt , I double checked, and it seems I have 30 samples in both the FeatureTable and the Metadata. I will try recreating both the FeatureTable and the metadata file, just in case there is something wrong with one or both that I'm missing. Does the order the samples appear in the files matter…

hi @willowblade I'm looking at the error message more carefully. That is actually an issue with the Metadata headers, not Gneiss. That issue has been fixed in the upcoming release of qiime2. The quick workaround is to use the previous release of qiime2.

[image] mortonjt: The quick workaround is to use the previous release of qiime2. Downgrading QIIME 2 releases likely won't solve the problem because Metadata handling hasn't changed between QIIME 2 releases in awhile. There are big changes to Metadata that will be included in the next release…

Just to check up on this, did we ever identify what the issue with the header was in particular?

Hi @willowblade , sorry this has fallen off the tracks a bit --- would you mind sending your files necessary to rerun the command above ? You can send me links to them in a direct message, or, attach directly, if they are small enough. Thanks! :t_rex:

I will send the files by DM, but it may be tomorrow or Thursday before I have a chance to dig out and send the files, I'd archived them while waiting for the next the QIIME2 release.

Thanks @willowblade --- I was able to connect with @mortonjt offline, he hooked me up with your files that you previously sent to him. Stay tuned!

Hi @willowblade ! I just ran the command you reported above, using the files you provided to @mortonjt in QIIME 2 2018.2 and everything appeared to work as expected. One minor change I had to make was to your sample metadata file - we added all new metadata handling in QIIME 2 2018.2 , and one of the …

Thank you, I appreciate your time on this! Now I know what I'm doing tomorrow :slight_smile:

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