# Mpox: nextstrain issue **URL:** \ **Category:** Help and Getting Started\ **Created:** [July 14, 2024, 4:15am UTC](https://nextstrain.discourse.group/t/mpox-nextstrain-issue/1683 "2024-07-14T04:15:37Z")\ **Posts on this page:** 3\ **Page:** 1
**Author:** ![Kritchy](https://avatars.discourse-cdn.com/v4/letter/k/c77e96/32.png) [@Kritchy](https://nextstrain.discourse.group/u/Kritchy)\ **Post date:** [July 14, 2024, 4:15am UTC](https://nextstrain.discourse.group/t/mpox-nextstrain-issue/1683/1 "2024-07-14T04:15:37Z")
Hello, I am working on mpox surveillance in Thailand.I initially attempted to run the mpox Nextstrain analysis on my local notebook using the default settings because I don’t yet have access to AWS S3. However, I encountered an error. kritchy@Kritchys-MacBook-Pro mpox % nextstrain build . --configfiles defaults/config.yaml Error: no Snakefile found, tried Snakefile, snakefile, workflow/Snakefile, workflow/snakefile. I also attempted to run the Augur pipeline, but encountered an error that I believe may be related to insufficient memory. Could you give me suggestions on how to contribute to Nextstrain’s mpox analysis in Thailand? Also, how many whole-genome mpox FASTA files can typically be run on a local notebook? /usr/local/bin/mafft: line 2747: 269 Killed “$prefix/disttbfast” -q $npickup -E $cycledisttbfast -V “-”$gopdist -s $unalignlevel $legacygapopt $mergearg -W $tuplesize $termgapopt $outnum $addarg $add2ndhalfarg -C $numthreads-$numthreadstb $memopt $weightopt $treeinopt $treeoutopt $distoutopt $seqtype $model -g $gexp -f “-”$gop -Q $spfactor -h $aof $param\_fft $algopt $treealg $scoreoutarg $anchoropt -x $maxanchorseparation $oneiterationopt \< infile \> pre 2\>\> “$progressfile” e = orig subalignment = 0 subalignmentoffset = 0 5 x 197209 - 660 d nthread = 1 nthreadpair = 1 nthreadtb = 1 ppenalty\_ex = 0 stacksize: 8192 kb generating a scoring matrix for nucleotide (dist=200) … done Gap Penalty = -1.53, +0.00, +0.00 Making a distance matrix … There are 37085 ambiguous characters. 1 / 5 (thread0) done. Constructing a UPGMA tree (efffree=0) … 0 / 5 done. Progressive alignment 1/2… STEP 1 / 4 (thread 0) f STEP2 / 4 (thread 0) f ---
**Author:** ![joverlee](https://avatars.discourse-cdn.com/v4/letter/j/e495f1/32.png) [@joverlee](https://nextstrain.discourse.group/u/joverlee)\ **Post date:** [July 15, 2024, 6:05pm UTC](https://nextstrain.discourse.group/t/mpox-nextstrain-issue/1683/2 "2024-07-15T18:05:25Z")
> kritchy@Kritchys-MacBook-Pro mpox % nextstrain build . --configfiles defaults/config.yaml > Error: no Snakefile found, tried Snakefile, snakefile, workflow/Snakefile, workflow/snakefile. Most likely this error occurred because you are running `nextstrain build` from the top level directory. Please follow the [usage docs in the repository](https://github.com/nextstrain/mpox/tree/master/phylogenetic#usage) to run the command from within the `phylogenetic` directory. Best, Jover ---
**Author:** ![Kritchy](https://avatars.discourse-cdn.com/v4/letter/k/c77e96/32.png) [@Kritchy](https://nextstrain.discourse.group/u/Kritchy)\ **Post date:** [July 20, 2024, 9:48am UTC](https://nextstrain.discourse.group/t/mpox-nextstrain-issue/1683/3 "2024-07-20T09:48:58Z")
Dear Joverlee, Thank you for your suggesion. Best, Kritchy