# \[ERROR} Your count table contains more than 1 sequence named **URL:** \ **Category:** mothur bugs\ **Created:** [September 7, 2023, 10:18pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936 "2023-09-07T22:18:52Z")\ **Posts on this page:** 6\ **Page:** 1
**Author:** ![gwidmer](https://avatars.discourse-cdn.com/v4/letter/g/a8b319/32.png) [@gwidmer](https://forum.mothur.org/u/gwidmer)\ **Post date:** [September 7, 2023, 10:18pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936/1 "2023-09-07T22:18:52Z")
Hello Pat and mothur community, I am using mothur v.1.48 for linux. The following command: make.shared(list=exp43.trim.contigs.subsample.unique.good.filter.unique.precluster.opti\_mcc.list, count=exp43.trim.contigs.subsample.unique.good.filter.unique.precluster.count\_table) generates this error: [ERROR]: Your count table contains more than 1 sequence named #1,exp43\_b1m1\_060223, sequence names must be unique. Please correct. If I use the same input files in Windows (mothur v.1.48) I get no error. In linux the count files generates a similar error if input into a different command, say, summary.seqs together with matching fasta file [ERROR]: Your count table contains more than 1 sequence named Representative\_Sequence, sequence names must be unique. Please correct. I ran into the same error and reported it last year on 9/2/22 running v.1.36.1. Sara assumed it was a bug and said it would be fixed. I have since run similar pipelines, including make.shared command without encountering this issue. thank you, Giovanni ---
**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\ **Post date:** [September 11, 2023, 3:32pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936/2 "2023-09-11T15:32:55Z")
Hi there - are you positive you are using 1.48 on linux? When you look at the mothur logfile that is generated from running linux, do you see 1.48 there? It looks like it’s getting tripped up by the newer count\_table formatting so I asked about the version number. Could you maybe try using the argument in count.seqs that generates the older version of the files? Pat ---
**Author:** ![gwidmer](https://avatars.discourse-cdn.com/v4/letter/g/a8b319/32.png) [@gwidmer](https://forum.mothur.org/u/gwidmer)\ **Post date:** [September 11, 2023, 4:04pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936/3 "2023-09-11T16:04:22Z")
Hi Pat, here is the version I’m running: Linux version Using ReadLine,Boost,HDF5,GSL mothur v.1.48.0 Last updated: 5/20/22 by Patrick D. Schloss Department of Microbiology & Immunology University of Michigan > **[mothur website](http://mothur.org/)** > > The website that supports the mothur software program - one of the most widely used tools for analyzing 16S rRNA gene sequence data. Step inside to learn how to use the software, get help, and join our community! When using, please cite: Schloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41. Distributed under the GNU General Public License Type ‘help()’ for information on the commands that are available For questions and analysis support, please visit our forum at [https://forum.mothur.org](https://forum.mothur.org) Type ‘quit()’ to exit program [NOTE]: Setting random seed to 19760620. Sorry, I don’t understand what you mean by generating the older version of the files. v.1.48.0 is the only version I have. Giovanni ---
**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\ **Post date:** [September 11, 2023, 4:39pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936/4 "2023-09-11T16:39:53Z")
Can you try using `compress=F` with `count.seqs`? ---
**Author:** ![gwidmer](https://avatars.discourse-cdn.com/v4/letter/g/a8b319/32.png) [@gwidmer](https://forum.mothur.org/u/gwidmer)\ **Post date:** [September 11, 2023, 5:09pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936/5 "2023-09-11T17:09:27Z")
It ran fine with and without compress argument: mothur \> count.seqs(count=exp43.trim.contigs.subsample.unique.good.filter.unique.precluster.count\_table, compress=F) Output File Names: exp43.trim.contigs.subsample.unique.good.filter.unique.precluster.full.count\_table mothur \> count.seqs(count=exp43.trim.contigs.subsample.unique.good.filter.unique.precluster.count\_table) Output File Names: exp43.trim.contigs.subsample.unique.good.filter.unique.precluster.sparse.count\_table ---
**Author:** ![system](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/system/32/2_2.png) [@system](https://forum.mothur.org/u/system)\ **Post date:** [September 21, 2023, 5:10pm UTC](https://forum.mothur.org/t/error-your-count-table-contains-more-than-1-sequence-named/21936/6 "2023-09-21T17:10:22Z")
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