Nanopore data upload, format/datatype, and unexpected results from tools

usegalaxy.org support
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2

Hi @jas

This error indicates that a tar archive was loaded and used for the input. For many cases when a tar archive is uploaded, only the first file in the archive is loaded. That first file can be an index, which won’t contain any reads.

These tools are working at UseGalaxy.org using the tool’s test data (raw data URL link). Review to see if/how your input dataset differs and make adjustments as needed. The input was directly loaded by URL with the datatype “autodetected”. Galaxy | Accessible History | nanopore tar upload test

If you get odd results again after adjusting the input (as needed), or if you cannot figure out what adjustments are even needed, please write back and specify:

  1. Which public Galaxy server you are working at (server URL)? The topic was posted under the UseGalaxy.org category, but sometimes that is misassigned.
    • Or, if using a different type of Galaxy deployment, please describe. Galaxy version, how/where sourced and installed, and the last date it was updated.
    • Update your own Galaxy if needed. There are point-updates between full releases – and those are usually important to capture (tend to be bug fixes important enough to include before the next full release) Releases — Galaxy Project 20.09 documentation. Please be aware that the next full release is expected to be published in the next week or so (if all goes as planned!). The pre-release 21.01 is already installed at UseGalaxy.org for integration testing – but don’t install that version yet on your own server.
    • How and from where tools were installed also matters. The most current version should be sourced from the Galaxy Main ToolShed https://toolshed.g2.bx.psu.edu/. Install directly from the Admin area of the Galaxy application and use the built-in dependency resolution function for the simplest way to make sure the install is complete.
  2. What is the “datatype” currently assigned to the dataset when the tools failed to produce output?
  3. Was that “datatype” autodetected during Upload? Or did you assign it directly? What datatype is assigned if you try to “detect datatype” under the function: pencil icon > Edit attributes > Datatypes? Does a rerun work with that datatype assigned (if it differs)?

Let’s start troubleshooting more from there :slight_smile:. We may ask for you to generate a share link to the history containing the work so we can review it in more detail and provide the best feedback. That can be posted into a branched direct message (we’ll start one up – as you won’t be able to yet since are new to this forum) – unless you are Ok with posting the share link publically in a reply to this topic.

Thanks!