# \#queued-gray-datasets **URL:** https://help.galaxyproject.org/tag/queued-gray-datasets/243.md [Latest](https://help.galaxyproject.org/latest.md) · [Categories](https://help.galaxyproject.org/categories.md) · [Tags](https://help.galaxyproject.org/tags.md) --- ## [Kraken2 jobs and how these process at UseGalaxy.org](https://help.galaxyproject.org/t/kraken2-jobs-and-how-these-process-at-usegalaxy-org/18474)
**Author:** [@Sangeun\_Lee](https://help.galaxyproject.org/u/Sangeun_Lee)\ **Replies:** 1\ **Last updated:** [October 14, 2026, 5:50pm UTC](https://help.galaxyproject.org/t/kraken2-jobs-and-how-these-process-at-usegalaxy-org/18474 "2026-10-14T17:50:24Z")
Hello, I have several jobs that have remained in the queued state for an unusually long time on usegalaxy.org. Kraken2: Two jobs (SRR24821405 and SRR24821387) have been queued for more than a day, while the other 11 … --- ## [Galaxy server slow and freezed](https://help.galaxyproject.org/t/galaxy-server-slow-and-freezed/18411)
**Author:** [@karenandreac](https://help.galaxyproject.org/u/karenandreac)\ **Replies:** 1\ **Last updated:** [September 23, 2026, 5:21pm UTC](https://help.galaxyproject.org/t/galaxy-server-slow-and-freezed/18411 "2026-09-23T17:21:15Z")
Hello! Since yesterday I’ve been working with DADA2 in Galaxy.org and it has been very slow, the tool MakeSequenceTable has been freezed without initiating for many hours now. Would you let me know if there are any iss… --- ## [Data Upload delays UseGalaxy.org Sept 2026](https://help.galaxyproject.org/t/data-upload-delays-usegalaxy-org-sept-2026/18375)
**Author:** [@Linda\_Kaira](https://help.galaxyproject.org/u/Linda_Kaira)\ **Replies:** 3\ **Last updated:** [September 10, 2026, 4:45pm UTC](https://help.galaxyproject.org/t/data-upload-delays-usegalaxy-org-sept-2026/18375 "2026-09-10T16:45:50Z")
Good day, I have an issue of my data having queued for over 24 hours and even if I upload new data I am still receiving a queued status. I have even started a new history but it is still giving me a queued status --- ## [SPAdes queued for hours](https://help.galaxyproject.org/t/spades-queued-for-hours/18280)
**Author:** [@Chris\_Tsoukas](https://help.galaxyproject.org/u/Chris_Tsoukas)\ **Replies:** 1\ **Last updated:** [August 12, 2026, 11:28pm UTC](https://help.galaxyproject.org/t/spades-queued-for-hours/18280 "2026-08-12T23:28:26Z")
Hi! I am trying to run SPAdes in Galaxy Europe, and the jobs are in queue for hours without starting. Is there anything I can do? Thanks in advance. --- ## [Jobs queues: how to check the server stats at UseGalaxy.eu](https://help.galaxyproject.org/t/jobs-queues-how-to-check-the-server-stats-at-usegalaxy-eu/18251)
**Author:** [@mokba312](https://help.galaxyproject.org/u/mokba312)\ **Replies:** 2\ **Last updated:** [August 6, 2026, 5:10pm UTC](https://help.galaxyproject.org/t/jobs-queues-how-to-check-the-server-stats-at-usegalaxy-eu/18251 "2026-08-06T17:10:52Z")
I am getting same problem don’ know what is the issue --- ## [Jobs remain in "new" state since Tuesday maintenance on usegalaxy.eu](https://help.galaxyproject.org/t/jobs-remain-in-new-state-since-tuesday-maintenance-on-usegalaxy-eu/18249)
**Author:** [@ehmig](https://help.galaxyproject.org/u/ehmig)\ **Replies:** 1\ **Last updated:** [August 6, 2026, 4:59pm UTC](https://help.galaxyproject.org/t/jobs-remain-in-new-state-since-tuesday-maintenance-on-usegalaxy-eu/18249 "2026-08-06T16:59:01Z")
Hello, I’m experiencing an issue on usegalaxy.eu since the scheduled maintenance on Tuesday at around 14:00 (CEST). Before the maintenance, everything was working normally. Since then, I have not been able to run any j… --- ## [Jobs running for 4+ days with no progress](https://help.galaxyproject.org/t/jobs-running-for-4-days-with-no-progress/18027)
**Author:** [@AEJ](https://help.galaxyproject.org/u/AEJ)\ **Replies:** 1\ **Last updated:** [June 10, 2026, 3:24am UTC](https://help.galaxyproject.org/t/jobs-running-for-4-days-with-no-progress/18027 "2026-06-10T03:24:46Z")
I’ve started a job with RNA Star on Friday (June 4) and it successfully completed 5 of my files, but the other ones haven’t had any progress in days (2 are “Running” and the other 3 haven’t begun yet. Is the server just … --- ## [Job not starting? NCBI FCS GX queue timing explained](https://help.galaxyproject.org/t/job-not-starting-ncbi-fcs-gx-queue-timing-explained/17714)
**Author:** [@jaredbernard](https://help.galaxyproject.org/u/jaredbernard)\ **Replies:** 4\ **Last updated:** [May 9, 2026, 2:34am UTC](https://help.galaxyproject.org/t/job-not-starting-ncbi-fcs-gx-queue-timing-explained/17714 "2026-05-09T02:34:25Z")
A few days ago, I submitted a job with the tool ‘NCBI FCS GX’ but it hasn’t started yet. It should be a simple task. Is the public EU Galaxy server really that backed up? --- ## [Why my jobs are being queued for more than 24 hours and still waiting](https://help.galaxyproject.org/t/why-my-jobs-are-being-queued-for-more-than-24-hours-and-still-waiting/17708)
**Author:** [@vichetra\_sam](https://help.galaxyproject.org/u/vichetra_sam)\ **Replies:** 1\ **Last updated:** [May 6, 2026, 4:24pm UTC](https://help.galaxyproject.org/t/why-my-jobs-are-being-queued-for-more-than-24-hours-and-still-waiting/17708 "2026-05-06T16:24:50Z")
Hi I submitted a job more than 24 hours ago, and it is still waiting in a queue. I find it a bit unusual . How could I reach out the admin for help ? Regards. --- ## [How to capture a share link to a Workflow Invocation](https://help.galaxyproject.org/t/how-to-capture-a-share-link-to-a-workflow-invocation/17666)
**Author:** [@User37363](https://help.galaxyproject.org/u/User37363)\ **Replies:** 4\ **Last updated:** [May 2, 2026, 12:59am UTC](https://help.galaxyproject.org/t/how-to-capture-a-share-link-to-a-workflow-invocation/17666 "2026-05-02T00:59:01Z")
Hello! I have been testing my workflows and recently my jobs (using Shovill and GTDB-tk) are stuck. I tried waiting overnight and they are still queued. I am not sure if this is just due to server load or my workflows ha… --- ## [Cut Issue Related to Metagenomic](https://help.galaxyproject.org/t/cut-issue-related-to-metagenomic/17698)
**Author:** [@Arif\_Omar](https://help.galaxyproject.org/u/Arif_Omar)\ **Replies:** 1\ **Last updated:** [April 30, 2026, 10:03pm UTC](https://help.galaxyproject.org/t/cut-issue-related-to-metagenomic/17698 "2026-04-30T22:03:42Z")
Hi, I am trying to use the cut on my “Predicted taxon relative abundance (output of Metaphlan)” but it seems like it has taken more than 30 minutes now. Am i doing anything wrongly here? I have also tried to cut c1,c3 an… --- ## [Jobs Stuck processing with a workflow: Using the job cache to rerun workflows with canceled outputs](https://help.galaxyproject.org/t/jobs-stuck-processing-with-a-workflow-using-the-job-cache-to-rerun-workflows-with-canceled-outputs/17659)
**Author:** [@M\_M](https://help.galaxyproject.org/u/M_M)\ **Replies:** 3\ **Last updated:** [April 21, 2026, 7:20pm UTC](https://help.galaxyproject.org/t/jobs-stuck-processing-with-a-workflow-using-the-job-cache-to-rerun-workflows-with-canceled-outputs/17659 "2026-04-21T19:20:14Z")
Hi, I’ve started a workflow with 42 samples. They were all scheduled for RNA Star, 5 hours later 39 samples were successfully completed. However, now 19 hours after the samples went into Star 2 are still processing. Is … --- ## [RNA-STAR has been queued](https://help.galaxyproject.org/t/rna-star-has-been-queued/2815)
**Author:** [@ASHISH\_MISHRA](https://help.galaxyproject.org/u/ASHISH_MISHRA)\ **Replies:** 1\ **Last updated:** [April 21, 2026, 12:14am UTC](https://help.galaxyproject.org/t/rna-star-has-been-queued/2815 "2026-04-21T00:14:16Z")
I’m rather new to Galaxy. I’m trying to run RNA-STAR using mapped.bam file, The job has been queued now for more than 24 hrs. Is this normal? --- ## [Metagenomic analysis of data](https://help.galaxyproject.org/t/metagenomic-analysis-of-data/17602)
**Author:** [@Shailendra\_Yadav](https://help.galaxyproject.org/u/Shailendra_Yadav)\ **Replies:** 3\ **Last updated:** [March 30, 2026, 5:33pm UTC](https://help.galaxyproject.org/t/metagenomic-analysis-of-data/17602 "2026-03-30T17:33:07Z")
I am trying toperform taxonomic analysis using workflow : Metagenomic taxonomy analysis by user mina 24. During analysis, some of jobs are paused associated with kraken/braken analysis. Please provide possible solution … --- ## [How to ask for admin help after long queued job 13h and 0% progress?](https://help.galaxyproject.org/t/how-to-ask-for-admin-help-after-long-queued-job-13h-and-0-progress/17601)
**Author:** [@John\_Alex](https://help.galaxyproject.org/u/John_Alex)\ **Replies:** 1\ **Last updated:** [March 25, 2026, 8:00am UTC](https://help.galaxyproject.org/t/how-to-ask-for-admin-help-after-long-queued-job-13h-and-0-progress/17601 "2026-03-25T08:00:42Z")
--- ## [My sample for MarkDuplicates is not running](https://help.galaxyproject.org/t/my-sample-for-markduplicates-is-not-running/17507)
**Author:** [@Bamgeut13](https://help.galaxyproject.org/u/Bamgeut13)\ **Replies:** 1\ **Last updated:** [February 26, 2026, 9:04pm UTC](https://help.galaxyproject.org/t/my-sample-for-markduplicates-is-not-running/17507 "2026-02-26T21:04:41Z")
Hi, I am a beginner in run Galaxy. I’m trying to run my sample using MarkDuplicates and it has been more than 7 hours but it still says “this job is waiting to run”. Anyone can tell me what I can do? I appreciate your he… --- ## [Kraken2 not working?](https://help.galaxyproject.org/t/kraken2-not-working/17475)
**Author:** [@Jon\_Colman](https://help.galaxyproject.org/u/Jon_Colman)\ **Replies:** 2\ **Last updated:** [February 20, 2026, 12:27am UTC](https://help.galaxyproject.org/t/kraken2-not-working/17475 "2026-02-20T00:27:47Z")
Is Kraken2 not working now?? I started some jobs yesterday running on the GTDB database, which often runs very quickly. After 1 day, nothing even started. I deleted these and trying again, but doesn’t appear to be s… --- ## [Job still running for more than 15 hours](https://help.galaxyproject.org/t/job-still-running-for-more-than-15-hours/17405)
**Author:** [@Monish\_V](https://help.galaxyproject.org/u/Monish_V)\ **Replies:** 9\ **Last updated:** [February 11, 2026, 8:32pm UTC](https://help.galaxyproject.org/t/job-still-running-for-more-than-15-hours/17405 "2026-02-11T20:32:31Z")
I’ve been running HISAT on the given below job API ID Kindly provide support | 11ac94870d0bb33a951ae66565734a8e --- ## [Job running for more than an hour](https://help.galaxyproject.org/t/job-running-for-more-than-an-hour/17422)
**Author:** [@Adhiti\_R](https://help.galaxyproject.org/u/Adhiti_R)\ **Replies:** 1\ **Last updated:** [February 5, 2026, 6:33pm UTC](https://help.galaxyproject.org/t/job-running-for-more-than-an-hour/17422 "2026-02-05T18:33:47Z")
Any admins present kindly check and allocate more memory if possible | 11ac94870d0bb33a0c7895567614c98b --- ## [NCBI FCS GX doesn't launch](https://help.galaxyproject.org/t/ncbi-fcs-gx-doesnt-launch/15137)
**Author:** [@GuillaumeDore11](https://help.galaxyproject.org/u/GuillaumeDore11)\ **Replies:** 11\ **Last updated:** [January 5, 2026, 11:36pm UTC](https://help.galaxyproject.org/t/ncbi-fcs-gx-doesnt-launch/15137 "2026-01-05T23:36:21Z")
Hi, I tried to launch the decontamination tools NCBI FCS GX and it stay in waiting mode since days. When I launch another job with another software it works fine. I don’t understand what the problem is. --- ## [DIAMOND análisis de DAA lleva días sin completarse](https://help.galaxyproject.org/t/diamond-analisis-de-daa-lleva-dias-sin-completarse/16596)
**Author:** [@iKassadin](https://help.galaxyproject.org/u/iKassadin)\ **Replies:** 1\ **Last updated:** [December 26, 2025, 11:15pm UTC](https://help.galaxyproject.org/t/diamond-analisis-de-daa-lleva-dias-sin-completarse/16596 "2025-12-26T23:15:47Z")
Hola, Tengo un problema grave con un análisis DIAMOND en usegalaxy.eu que ha estado corriendo sin completarse durante varios días. Los detalles son: Información del Análisis: Historial: SRR35949146 (Diamond on collec… --- ## [Stop running a job](https://help.galaxyproject.org/t/stop-running-a-job/16598)
**Author:** [@Teodora\_Dima](https://help.galaxyproject.org/u/Teodora_Dima)\ **Replies:** 1\ **Last updated:** [December 26, 2025, 11:10pm UTC](https://help.galaxyproject.org/t/stop-running-a-job/16598 "2025-12-26T23:10:43Z")
Hi, How should I stop running a job? I started two similar jobs in the tool Sub.sample, which are running about 12h. Thanks in advance, Teodora --- ## [About software running. why its slower](https://help.galaxyproject.org/t/about-software-running-why-its-slower/16599)
**Author:** [@iram](https://help.galaxyproject.org/u/iram)\ **Replies:** 2\ **Last updated:** [December 26, 2025, 11:06pm UTC](https://help.galaxyproject.org/t/about-software-running-why-its-slower/16599 "2025-12-26T23:06:53Z")
i have running GTDB-TK from one week but results not calculate. still running. why it slows nowadays --- ## [Is IQ-TREE currently functional?](https://help.galaxyproject.org/t/is-iq-tree-currently-functional/16585)
**Author:** [@Laura\_Harris](https://help.galaxyproject.org/u/Laura_Harris)\ **Replies:** 4\ **Last updated:** [December 23, 2025, 6:19pm UTC](https://help.galaxyproject.org/t/is-iq-tree-currently-functional/16585 "2025-12-23T18:19:50Z")
Hi, Is IQ-Tree currently functional? I set up some jobs over 12hrs ago and they have yet to start running. I used the same input in FastTree and got results within minutes. I deleted yesterday’s jobs and resubmitted to I… --- ## [Job seems stuck for RNA STAR](https://help.galaxyproject.org/t/job-seems-stuck-for-rna-star/16582)
**Author:** [@apeinasuit](https://help.galaxyproject.org/u/apeinasuit)\ **Replies:** 1\ **Last updated:** [December 18, 2025, 6:48am UTC](https://help.galaxyproject.org/t/job-seems-stuck-for-rna-star/16582 "2025-12-18T06:48:58Z")
I have RNA Star jobs running for 24 pairs, 22 OK and 2 running, but this has been the case for 2 days. Is there an issue with the data or the server? What can I do? --- ## [Alleyoop stuck as "running" for hours](https://help.galaxyproject.org/t/alleyoop-stuck-as-running-for-hours/16540)
**Author:** [@pizzabytes](https://help.galaxyproject.org/u/pizzabytes)\ **Replies:** 1\ **Last updated:** [December 3, 2025, 6:52pm UTC](https://help.galaxyproject.org/t/alleyoop-stuck-as-running-for-hours/16540 "2025-12-03T18:52:42Z")
I have Alleyoop jobs running (orange progress bar, no datasets) for almost 10 hours now. I’ve used this tool many times and it’s quite fast. Is there something wrong with this tool or is there a long queue in the server?… --- ## [Cluster delays at UseGalaxy.org Nov 19 2025: Resolved. Please allow queued jobs to process! Failures, while unexpected, may be rerun](https://help.galaxyproject.org/t/cluster-delays-at-usegalaxy-org-nov-19-2025-resolved-please-allow-queued-jobs-to-process-failures-while-unexpected-may-be-rerun/16503)
**Author:** [@Jon\_Colman](https://help.galaxyproject.org/u/Jon_Colman)\ **Replies:** 4\ **Last updated:** [November 20, 2025, 1:05am UTC](https://help.galaxyproject.org/t/cluster-delays-at-usegalaxy-org-nov-19-2025-resolved-please-allow-queued-jobs-to-process-failures-while-unexpected-may-be-rerun/16503 "2025-11-20T01:05:45Z")
It doesn’t appear that Kraken2 will run when using the DTDB database, I use others just fine. --- ## [Kraken2 not running](https://help.galaxyproject.org/t/kraken2-not-running/16460)
**Author:** [@Jon\_Colman](https://help.galaxyproject.org/u/Jon_Colman)\ **Replies:** 10\ **Last updated:** [November 8, 2025, 1:46am UTC](https://help.galaxyproject.org/t/kraken2-not-running/16460 "2025-11-08T01:46:18Z")
Trying to run Kraken2, I started them yesterday and still not starting. Is something wrong?? --- ## [Upload files stuck in queue](https://help.galaxyproject.org/t/upload-files-stuck-in-queue/16470)
**Author:** [@jperkins](https://help.galaxyproject.org/u/jperkins)\ **Replies:** 3\ **Last updated:** [November 6, 2025, 8:02pm UTC](https://help.galaxyproject.org/t/upload-files-stuck-in-queue/16470 "2025-11-06T20:02:44Z")
I have been unable to upload any files to usegalaxy.org for nearly 24hours. Files will process through the upload-tool and show up in the history but will be stuck in the queue forever. I allowed some to sit overnight to… --- ## [16S-DADA2 problems](https://help.galaxyproject.org/t/16s-dada2-problems/16417)
**Author:** [@Pshre1](https://help.galaxyproject.org/u/Pshre1)\ **Replies:** 1\ **Last updated:** [October 28, 2025, 12:15am UTC](https://help.galaxyproject.org/t/16s-dada2-problems/16417 "2025-10-28T00:15:59Z")
I am a beginner here, trying to process 16S amplicon data using dada2, I am following GAT for this, but I am stuck on “dada2:learnerror”, where am I going wrong? It is quite frustrating waiting for an hour or so and all … [Next page](https://help.galaxyproject.org/tag/queued-gray-datasets/243.md?match_all_tags=true&page=1&tags%5B%5D=queued-gray-datasets)