Alpha-diversity plugin error message

diversity

(Jess) #1

metadata8.tsv (4.2 KB)
I am attempting to run about 52 samples through qiime2-2018.11 alpha-diversity program however I am continuously receiving the same error message. The command I used is: qiime diversity alpha-rarefaction --i-table table.qza --i-phylogeny rooted-tree.qza --p-max-depth 56000 --m-metadata-file metadata8.tsv --o-visualization alpha-rarefaction.qzv. When I change the p-max-depth I still get the same error message however each time the the n-value will change along with the corresponding tip names being entirely different. I have read several different topics on this forum however, none seem to help with my particular problem. I have attached my metadata file along with my table.qzv. I appreciate any help that you can provide. Thank you! table.qzv (1.5 MB)

" Plugin error from diversity:

All feature_ids must be present as tip names in phylogeny. feature_ids not corresponding to tip names (n=110): f40160c7bc6eb6323409d9f4ec6e4dd1 3c8bf8b52c3f2eeb1b51f93b75d92d8f 0e2c0856256fc572e1a5310580239323 06bc10718a2f6fed14cc076d435443cc 36dace4eff003322cfdbfa167915a8fd 6e26daea11abd79348f62a6f01521ab5 81179cb6d0bd76366afd7b45b4225fa2 9e4b87b7b3099d39933764cc49feb355 65c33bf4f6aba9bf140b09cef2fba1c9 e51e38d797db66cc6df9b6cfb3af3947 41a87765aca22ad5c052b31db07dacbc 1e1ec7946e7174bf9a2cabc8a8393fe9 ef59431c8c517ab08f8ef6a37e914f14 3a670ad8aa98eb8665bfca1a7248801a fda9600590a595c4273c48a1bae94449 89df39d587ef8a0e9857391cea99c237 b6badaab901a316e7a4a5270523cb770 cba4e32cf5882ace54086f791873ed6a a9f58eff835623d8d8412937887cc947 d640d618605159cddbc572e78e15b4d6 2d89492767ac27dbc9f1dcae65b96883 b630e13fd0a47da6914ab6877e756a31 a96de7664ee979a31a4d7df0f93a4b5b 084455d5dc0171fc44d3548dda230896 a78814753324178ddb96219fa76cbf25 3ddc92e5580247f70f3f80598b77b143 81018b7a329772e855c571128f590e7d 9af782faf9203d10cafc9a546d6d9520 95915f989a6bcb5224fc45cca9ddd97b bb9951b37299a80506ae6a78cbe35f8d 9f0b6ea6747a13d2072b5a8ffd4b0788 ee0da13a05dd5b55d8f4a46cbb51c038 6adc6477dc220515b9cd0e13a06ee6a9 17b24c638602ddc16c2918ed45db667d 5ace58a86b388555d1cbef95ef233510 ddfdc0f5cf18ed02115e5d9c5bc6c784 926f6cec114cd7038e940ae2b006ce40 fd29d4ada717ad8ad6aaa412c260659e 5c7bbb7954b6244ada50987f050c39c1 3204a7175e0590953dbff82781ecf386 99e1c6e059d540401005c82e523177cd eef9833a5eb64a934f55c25de649093c 0763e657032810e878a45563a571df62 74fb61b289e3e8a1f42931b37302195c fc198d39b6835c26cec1a394a360f88d 6290dfec8bca04ab33217363860173f1 5de7e117db683bcbd7f0b2f946c9a6c7 c238105fd94cbc726f6ec8ee03c8f321 34367bd85c61e37a181b60d16fe2ec75 a65d2d0c467691479248ec3f8e15be98 70be749e54da23b52c7bdf6006ffdbd1 8aff4f3ad2b52b0b1791cab6e19d4308 44d53cd8738da9535161aec5d836d7e1 88af83e6cb0698feceb1832a4ea45ebd bc0ee68de3bf8352714969a333a8326e ae2d8d5f7666763e9a2cbf7fe02e4cd9 2f325ea1312ed47e7ed85e3c26e7cc28 16e09c93a61483a84751e9c30d38bc7c bea62fb860a71005a1401c036bc7cfda 06796207e3fe30e7b791bd976416d252 c5c47d0cf2aab8fb7840a2a91f5bd49b c79d8a07d1407ffc10daf414a6d9ef24 eec116c5bbc8348af5d61a0dfb5a082d c5203f8badb10d50ad978e4513909da7 8d1823cc23df96d7e077ff423efaca93 8d47cc33998eb104ac846c5141c82d06 57dfbacaff7f2e80dfa97536b39065df c7a16bfd4178a5f23107caacc76ff12f 4400b1883d6e6dac5d4cc07843fa5a99 9d5a08e0fd22933ab8096808b7acf7c4 07feeb730907c97b59e0bdfb44311e57 a9dbf38a52e8a7b0a997883e26cece71 8bfaf9c784edfb67ff9957717e3ba80e 666895fa1864607bbd0756f15a8ff921 bebca2fc1c457d87614c679f8eae246c c23cc86de878110b1fbeaca95e66affd df0e496c8a8bd0f907bd82456e692155 e46d75f6e57c2c6439152e625ae9bd36 de46cb9f13452a8936a3b8cd981e184a 4a7cb72521c4bbe761ef97d827582495 f680d4ded573ebab8c7911cd3ddd7190 a6e698ad59ecbe6f0337eb4d72fb0006 67f07c9182813b3da27b051d79752b4b 4422a735e769cd10834bb42045488816 17f35970cf1189e898339b62e0b3f2fe 6020de123991f18239b7445c782fcf96 34e34dbe5597f0e00bd5d948679f621c ff4681039b2e4d6ea572c23ed14837a4 6b8b1418ea1dab1ae5833483e9b1b0a3 4c4d233917f5a660b13e729b9ec6fcf9 f3c22a119ee923455e3e552da68b76b0 212812731f653bf5c129d3bb4f3869e8 0b52124bdf86d437a8fe8bcef485a388 5d1d4f2d3dce840699a07e5781bb18dd 84e9c17b68479abe51e6dd9c9a100f8e cfffa5f4dfc464b3fabc6892c3fe22cb 5f1c9bde509504fd69ecfaa561766a93 f78360d2fb3b7ff8654c36ace5a8a16d 076b9759277843707a5b81ae0c645806 349e82a481f5b33670786e8b9b7bd9fe edf4af705d0192fb036c7c3819141b36 b6bde6bbee42a11987de3ea2ac96c8f0 8d1808aa4b9ec670cdf2c7989dbd2f8b 1fa8a1925794c4fb324f6013ab4e4e47 faad235813dc80059d89baa00e8facc7 d0dd951b74404d46be87ee78d75f1fb5 f2cf8ea000a3c735dafc6120893661fe 2211bf59d634d1745bc81b925118b03b eb4c9a6d455d504165c8f1a55b65c73d bb58760e57b118c5be38247dc5915c37


(Nicholas Bokulich) #2

Hi @jrespress2,

Sounds like you are using the wrong tree. How did you build this tree? Are you sure it was built from the correct sequences? You can check your provenance to ensure that your sequences and table were constructed from the same data. Perhaps you filtered the sequences you used to build the tree, but not your feature table?

Nothing abnormal there. This is because alpha-rarefaction is randomly subsampling your table multiple times — so different features may be present in the subsample each time.

I hope that helps!


(Jess) #3

Thank you! It did not cross my mind that I would have to filter my feature table as well!