# RESCRIPt plug-in error - deprelicate after extracting reads for amplicon-region specific classifier **URL:** https://forum.qiime2.org/t/rescript-plug-in-error-deprelicate-after-extracting-reads-for-amplicon-region-specific-classifier/34010 **Category:** Technical Support **Created:** [February 28, 2026, 3:04pm UTC](https://forum.qiime2.org/t/rescript-plug-in-error-deprelicate-after-extracting-reads-for-amplicon-region-specific-classifier/34010 "2026-02-28T15:04:33Z") **Posts on this page:** 1 **Showing post:** 2
### Author: ![SoilRotifer](https://forum.qiime2.org/user_avatar/forum.qiime2.org/soilrotifer/32/21071_2.png) [@SoilRotifer](https://forum.qiime2.org/u/SoilRotifer) #### Post date: [March 1, 2026, 5:12pm UTC](https://forum.qiime2.org/t/rescript-plug-in-error-deprelicate-after-extracting-reads-for-amplicon-region-specific-classifier/34010/2 "2026-03-01T17:12:22Z")
Hi @ctekellogg, I just copied and pasted the commands you provided on my laptop, and everything worked successfully. So, I am not sure what might have happened on your end. Is the error repeatable? Perhaps start from the beginning again? The taxonomy can be a super set of the sequences. So, that error often arises when a given taxonomy is not present in the taxonomy file, but present in the sequence file. Make sure there isn't a file mixup somewhere. 🤔 Perhaps remove the existing QIIME 2 environment, and reinstall anew, then try again? FYI, if you add `--p-threads 8` to the `dereplicate` command, and `--p-n-jobs 8` to the `cull-seqs` command it will run much quicker. If you'd like to know what options are available add `--help` to any `qiime` command. * * * On another note, if making an amplicon specific classifier I'd recommend: ```auto qiime rescript get-silva-data ... qiime rescript reverse-transcribe ... qiime feature-classifier extract-reads ... qiime rescript cull-seqs ... qiime rescript dereplicate ... qiime feature-classifier fit-classifier-naive-bayes ... ``` That is, there is likely a chance that the extracted region itself is of good quality, compared to the full-length sequences. That is, you might remove "good" amplicon region data when running `cull-seqs`, and `filter-seqs-length-by-taxon` prior to extracting the amplicon specific region. That tutorial, isn't meant to be an SOP, just a bunch of simple examples about what you can do with RESCRIPt. I just used the output from the previous step to keep the tutorial easy to follow. For example `filter-seqs-length-by-taxon`, is an example of making a more stringent full-length classifier. Feel free to alter the order, and or skip / add commands you think might be best. 🙂 --- _[View the full topic](https://forum.qiime2.org/t/rescript-plug-in-error-deprelicate-after-extracting-reads-for-amplicon-region-specific-classifier/34010)._