# Error quast metagenoma **URL:** \ **Category:** Uncategorized\ **Tags:** assembly\ **Created:** [March 18, 2024, 3:22am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945 "2024-03-18T03:22:05Z")\ **Posts on this page:** 10\ **Page:** 1
**Author:** ![Laura\_Ximena\_Nunez\_R](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/laura_ximena_nunez_r/32/4897_2.png) [@Laura\_Ximena\_Nunez\_R](https://help.galaxyproject.org/u/Laura_Ximena_Nunez_R)\ **Post date:** [March 18, 2024, 3:22am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/1 "2024-03-18T03:22:05Z")
cordial greetings It turns out that I am starting to use galaxy so far the quality control of the sequences and the assembly has gone well, but at the time of making the quality control of the assembly comes out error in the data. I do not know if I am selecting the data wrong. Can someone tell me how to solve the problem? ---
**Author:** ![Laura\_Ximena\_Nunez\_R](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/laura_ximena_nunez_r/32/4897_2.png) [@Laura\_Ximena\_Nunez\_R](https://help.galaxyproject.org/u/Laura_Ximena_Nunez_R)\ **Post date:** [March 18, 2024, 3:35am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/2 "2024-03-18T03:35:28Z")
![Captura de pantalla 2024-03-17 210902](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/1/17f84dcb8079ce02540f4226890bef88d0159398.png) ---
**Author:** ![igor](https://avatars.discourse-cdn.com/v4/letter/i/dec6dc/32.png) [@igor](https://help.galaxyproject.org/u/igor)\ **Post date:** [March 18, 2024, 4:04am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/3 "2024-03-18T04:04:27Z")
Hi @Laura_Ximena_Nunez_R click at ( i ) icon and examine the standard output and standard error log files in the middle window. Do you see any useful messages? Click at View Error icon, the one looking like lady bird beetle. Any useful info? Kind regards, Igor ---
**Author:** ![Laura\_Ximena\_Nunez\_R](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/laura_ximena_nunez_r/32/4897_2.png) [@Laura\_Ximena\_Nunez\_R](https://help.galaxyproject.org/u/Laura_Ximena_Nunez_R)\ **Post date:** [March 18, 2024, 4:15am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/5 "2024-03-18T04:15:23Z")
![Captura de pantalla 2024-03-17 225823](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/0/0155cf4a6845b535707b9e99dfa87988a4e8afd3.png) Although I also have the doubt if I am uploading the data wrong and that can cause the error. ---
**Author:** ![Laura\_Ximena\_Nunez\_R](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/laura_ximena_nunez_r/32/4897_2.png) [@Laura\_Ximena\_Nunez\_R](https://help.galaxyproject.org/u/Laura_Ximena_Nunez_R)\ **Post date:** [March 18, 2024, 4:17am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/6 "2024-03-18T04:17:11Z")
![Captura de pantalla 2024-03-17 224036](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/2/2c0eee293d258a3d2e4d7bdbc30abb8c939dd787.png) My data are soil metagenomes, I assemble them and directly select the megahit output to upload to quast. ---
**Author:** ![Laura\_Ximena\_Nunez\_R](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/laura_ximena_nunez_r/32/4897_2.png) [@Laura\_Ximena\_Nunez\_R](https://help.galaxyproject.org/u/Laura_Ximena_Nunez_R)\ **Post date:** [March 19, 2024, 2:48pm UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/7 "2024-03-19T14:48:15Z")
here is the work history > **[Galaxy](https://usegalaxy.eu/published/history?id=65936d814d1cd259)** > > Galaxy is a community-driven web-based analysis platform for life science research. ---
**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Post date:** [March 19, 2024, 5:02pm UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/8 "2024-03-19T17:02:21Z")
Hi @Laura_Ximena_Nunez_R The tool completely died out, probably because of the large, fragmented assembly. It also doesn’t appear to be quality filtered yet, and includes contigs like this! > k91\_0 flag=1 multi=1.0000 len=331 > GGGGGGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCAAACAAAAAAAAACAAAAAAAAAACCCCACACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAATAAATTAAAAAAAAAAAAAAAAAAAAAAACACAAAAAAAAAAAAA > AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA Try reviewing tutorials for methods. This one in particular seems promising for you. Starts at the initial contig step. Find more linked from the bottom of tool forms or review categories at the GTN. [Hands-on: Binning of metagenomic sequencing data / Microbiome](https://training.galaxyproject.org/topics/microbiome/tutorials/metagenomics-binning/tutorial.html) ---
**Author:** ![Laura\_Ximena\_Nunez\_R](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/laura_ximena_nunez_r/32/4897_2.png) [@Laura\_Ximena\_Nunez\_R](https://help.galaxyproject.org/u/Laura_Ximena_Nunez_R)\ **Post date:** [March 20, 2024, 1:08am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/9 "2024-03-20T01:08:10Z")
Actually it was done in quality control analysis with fastq and in general it was \>30, then if I did the assembly with MEGAHIT but at the time of making the quality control of the assembly it comes out in error that I tell you. What can you recommend me? ---
**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Post date:** [March 20, 2024, 5:11pm UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/10 "2024-03-20T17:11:32Z")
Hi @Laura_Ximena_Nunez_R I would recommend filtering that assembly for low information sequences to see if that helps. One tool to do this for fasta data is → **Remove sequencing artifacts** [Link at UseGalaxy.org](https://usegalaxy.org/root?tool_id=toolshed.g2.bx.psu.edu/repos/devteam/fastx_artifacts_filter/cshl_fastx_artifacts_filter/1.0.1+galaxy2) Another is → Filter FASTA [Link at UseGalaxy.org](https://usegalaxy.org/root?tool_id=toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/2.3) Any sequence with strings of AAAAAAAAA is not going to be a meaningful result. Overall, I suspect something went wrong with the upstream QA if this is the result from MEGAHIT. You can try to clean up the data after but … this data might have impacted other results. That is why I pointed you to the tutorials for alternative methods for a comparision. ---
**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\ **Post date:** [April 18, 2026, 2:11am UTC](https://help.galaxyproject.org/t/error-quast-metagenoma/11945/11 "2026-04-18T02:11:01Z")