# Visualization of box plot(jqPlot) problem **URL:** \ **Category:** usegalaxy.eu support\ **Tags:** gtn-tutorial, server-open-issue, visualization\ **Created:** [June 2, 2022, 1:23pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152 "2022-06-02T13:23:57Z")\ **Posts on this page:** 12\ **Page:** 1
**Author:** ![Arman\_Kulyyassov](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/arman_kulyyassov/32/3417_2.png) [@Arman\_Kulyyassov](https://help.galaxyproject.org/u/Arman_Kulyyassov)\ **Post date:** [June 2, 2022, 1:23pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/1 "2022-06-02T13:23:57Z")
Hi Galaxy team! I started training on Label-free data analysis using MaxQuant. I have a problem with “Visualize this data” on the cut tool result. When I selected box plot(jqPlot) it did not visualize data. Instead a message “Please confirm the settings before rendering the results” appeared. With best regards, Arman ---
**Author:** ![gallardoalba](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/gallardoalba/32/1903_2.png) [@gallardoalba](https://help.galaxyproject.org/u/gallardoalba)\ **Post date:** [June 7, 2022, 3:38pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/2 "2022-06-07T15:38:50Z")
Hi @Arman_Kulyyassov, thank you for your report; I contacted the person in charge of this training in order to check the problem. Regards ---
**Author:** ![foellmelanie](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/foellmelanie/32/3426_2.png) [@foellmelanie](https://help.galaxyproject.org/u/foellmelanie)\ **Post date:** [June 8, 2022, 7:17am UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/3 "2022-06-08T07:17:38Z")
Hi Arman, the Galaxy interface has changed a bit. When you see the message “Please confirm the settings before rendering the results” you should see two small arrows on the upper right corner of the screen. Once you click on them the menu appears which allows you to set the specified parameters. Best, Melanie ---
**Author:** ![Arman\_Kulyyassov](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/arman_kulyyassov/32/3417_2.png) [@Arman\_Kulyyassov](https://help.galaxyproject.org/u/Arman_Kulyyassov)\ **Post date:** [June 8, 2022, 12:20pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/4 "2022-06-08T12:20:08Z")
Dear Melanie, thank you very much for your letter and helpful advice. I followed instructions but instead of a visualization plot I get this: ![image](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/a/a2fdd13c2a482afa6b09ad70afcc0cc69e2cf54f.png) ---
**Author:** ![Raquel\_Neres](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/raquel_neres/32/4286_2.png) [@Raquel\_Neres](https://help.galaxyproject.org/u/Raquel_Neres)\ **Post date:** [May 19, 2023, 6:54pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/5 "2023-05-19T18:54:59Z")
Hello Arman, I’m facing the same issue now. I tried 3 different browsers, but it’s not working. How did you do to visualize the boxplot? Best regards, Raquel Neres ---
**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:** [May 22, 2023, 2:00am UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/6 "2023-05-22T02:00:46Z")
> [@Raquel\_Neres](#): > > How did you do to visualize the boxplot? Welcome, @Raquel_Neres Look under **User → Visualizations** The data will take variable time to render … and the “Please wait…” message will appear on the left side of the window. Let that complete to see the graphic. Which web browser you are using shouldn’t matter too much since the data is server side. Safari, Chrome, and Firefox are good choices. Avoid Internet Explorer. Make sure cookies are allowed (that is how Galaxy “knows” that you are accessing your own data, so privacy reasons). Reference: [Label-free data analysis using MaxQuant](https://training.galaxyproject.org/training-material/topics/proteomics/tutorials/maxquant-label-free/tutorial.html) The GTN is hosting a training session all next week. Everyone is welcome to join to interact with the authors and trainers. It is fine to still register. [Smörgåsbord 3: A week of Free, Online, Galaxy Training supported by the Global Galaxy Training Community](https://help.galaxyproject.org/t/smorgasbord-3-a-week-of-free-online-galaxy-training-supported-by-the-global-galaxy-training-community/9786) ---
**Author:** ![kostrykin](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/kostrykin/32/4345_2.png) [@kostrykin](https://help.galaxyproject.org/u/kostrykin)\ **Post date:** [June 5, 2023, 12:34pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/7 "2023-06-05T12:34:55Z")
I’m still having this issue after following your advices (with a different training). So I created a visualization using Box Plot (jqPlot) and it is then listed under **User → Visualizations**. However, when I click the visualization, the following two messages are displayed subsequently: > Your job has been queued. You may close the browser window. The job will run in the background. and then: > Your job is running in the background and you may close the browser tab. Results will be available in your saved visualizations list. When the second message vanishes, the window remains empty. No visualization is shown: ![Bildschirmfoto 2023-06-05 um 14.34.13](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/9/9fe27f09c75aeacdf0b1013210dc3aab90341309.png) There are also three data series configured. I also noticed that in the History pane, the visualization item is generated as of “format tabular”, which seems wrong to 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:** [June 5, 2023, 5:06pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/8 "2023-06-05T17:06:01Z")
Hi @kostrykin The [UseGalaxy.org](http://UseGalaxy.org) server had some problems that were just resolved. This is what probably caused your delays as well: [Cluster issue at UseGalaxy.org -- Resolved 06/05/2023. Rerun failed (red) or leave queued (gray) - #3 by jennaj](https://help.galaxyproject.org/t/cluster-issue-at-usegalaxy-org-resolved-06-05-2023-rerun-failed-red-or-leave-queued-gray/10185/3) > [@kostrykin](#): > > I also noticed that in the History pane, the visualization item is generated as of “format tabular”, which seems wrong to me? This tool will generate a tabular output to hold the visualization information (what is specified on those details screens where you are specifying how to plot the data). Then, when the visualization is viewed, that table is parsed into a graphic, on demand. You might need to do that “generate graphic artifact” process over again – or maybe that part was completed and the graphic will render now. Let us know how that goes, and we can follow up. If you want to share a history link back for outstanding issues, we can take a look to make sure more is not going on. [Sharing your History](https://training.galaxyproject.org/training-material/faqs/galaxy/histories_sharing.html) ---
**Author:** ![kostrykin](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/kostrykin/32/4345_2.png) [@kostrykin](https://help.galaxyproject.org/u/kostrykin)\ **Post date:** [June 5, 2023, 6:17pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/9 "2023-06-05T18:17:10Z")
Hi @jennaj thanks four your quick response, however, the problem still persists, as described above, I only get a blank screen when using the “Box Plot (jqPlot)” visualization tool (I’m using the [usegalaxy.eu](http://usegalaxy.eu) server). Here is the link to my history: [Galaxy | Europe](https://usegalaxy.eu/u/e26918e6b1264c81874871c01e988195/h/unnamed-history) I’m trying to produce a visualization of 219, while following this tutorial: [Analyse HeLa fluorescence siRNA screen](https://usegalaxy.eu/training-material/topics/imaging/tutorials/hela-screen-analysis/tutorial.html#plot-feature-extraction-results) ---
**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:** [June 5, 2023, 6:21pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/10 "2023-06-05T18:21:08Z")
Ok, thanks for clarifying. I’m looking now… Hi @kostrykin The how-to for the job seems to loop, and never produces a graphic. It cannot even be downloaded. I tried modifying the chart metadata to make the naming “unique” but that was not enough. This seemed specific to certain chart types, and I found an issue ticket. ~~The correction will be available at the UseGalaxy.\* servers after the next release.~~ No … sorry, that was a different chart type. I opened up a new issue, and used your example from the tutorial (copied over to the [usegalaxy.org](http://usegalaxy.org) server to make sure not server-specific problem). > > > \*\*Describe the bug\*\* > Boxplot fails to render. Tabular output is generated, but …no graphic. Either in Galaxy or when downloaded ("blank png"). > > Seems related to https://github.com/galaxyproject/galaxy/issues/13437 > > \*\*Galaxy Version and/or server at which you observed the bug\*\* > Galaxy Version: (check \/api/version if you don't know) > Commit: (run \`git rev-parse HEAD\` if you run this Galaxy server) > > \*\*To Reproduce\*\* > Steps to reproduce the behavior: > 1. Create a boxplot graphic > 2. Wait for that to process > 3. No graphic > 4. Seems to loop back into creating the graphic if that is access from User \> Visualizations > > \*\*Expected behavior\*\* > Create a graphic. Other charts do plot on the same input, including the formatted output from this chart type. > > \*\*Screenshots\*\* > If applicable, add screenshots to help explain your problem. > > \*\*Additional context\*\* > > History with output from the boxplot tool. Never renders. > https://usegalaxy.org/u/jen-galaxyproject/h/test-ghelp-8152 > > This is the blank graphic produced... > !\[New Chart\](https://github.com/galaxyproject/galaxy/assets/8999735/b2b7da34-bc35-4d87-88d9-37e2c7e3eff9) > ... in between here. I’m not sure of an exact workaround … but the tabular file is an appropriate input. There is likely a way to use the application directly as an alternative for the graphing portion. [http://www.jqplot.com/](http://www.jqplot.com/) Apologies for missing this earlier!! ---
**Author:** ![kostrykin](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/kostrykin/32/4345_2.png) [@kostrykin](https://help.galaxyproject.org/u/kostrykin)\ **Post date:** [June 5, 2023, 7:33pm UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/11 "2023-06-05T19:33:05Z")
Thanks for your efforts and the bug report! I subscribed to the issue. ---
**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:** [May 8, 2026, 2:11am UTC](https://help.galaxyproject.org/t/visualization-of-box-plot-jqplot-problem/8152/12 "2026-05-08T02:11:34Z")
Closed on May 8, 2026, 2:11am UTC