The small RNA Workbench Version 4.4

The small RNA Workbench Version 4.4 ALPHA: Released: 07/04/2017

This release is the next Alpha test for the latest version of the workbench, Version 4.0 (check the frequently encountered problems for a list of known issues).

This version is released as java binaries only to streamline the release process until the software moves into the stable release stage of its lifecycle.

We highly recommend using the latest version of Java to run this build. Anything past update release 111 of the JDK/JRE is well advised due to fixes made to the javascript portion of JavaFX

This release is only available as an ON DISK mode build.

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Filter 2

A new version of the filter tool is now available as part of a preconfigured workflow (currently the workflow is on its own, new workflows will be available soon with the filter tool included).

The Filter 2 program retains all of the functionality of the original tool with the added ability to update the RFAM database files. The original Filter program used an old version of the t/rRNA database taken from the original srna tools programs. The updated database is likely to be much larger and therefore will add to the processing time.

  • sRNA Workbench Admin

    A few months back we had a small technical problem, which is now fixed.
    Please try the latest release of the UEA sRNA Workbench.

    Irina Mohorianu

  • Same problem I am facing please give some solution.

    • Josh

      Try using the official Oracle version of Java

    • Hi there! I was trying to install srna-workbenchV3.0.dmg (98.2 MB) using
      Mac OSX. The packaging installer looks good to me, and as I double
      clicked the srna-workbench icon, I could see that it’s loading jvm
      mircat filter adapter removal etc but somehow the installer eventually
      closed by itself and nothing happened afterwards. Any similar thing
      happened to osx users?

      • sRNA Workbench Admin

        Hi,

        We also noticed the problem with the startup jar. We have rebuilt the current version (and uploaded it on sourceforge).
        Please have a go and let us know how it works.

        Irina Mohorianu

  • Priya Vathi

    Dear Matt,
    I am trying to use sRNA workbench (Ver. 4.4, 4.3.1) for
    degradome analysis using PAREsnip but i am encountered with the
    following error (in screenshot). Could you please give your valuable
    suggestions to overcome this issue.

    Thanks in advance

    https://uploads.disquscdn.com/images/c4672f75e95a74958fc9fbd53123a731ae70a5574a7aec21badbf8aaf8c5f78a.png

    • Same trouble.

    • Shobhana Rajasenan

      I’m no expert but your problem might be because you’re not using the right version of java. I found that I needed to use the oracle version instead of the open source one

      • The Filter 2 program retains all of the functionality of the original tool with the added ability to update the RFAM database files. The original Filter program used an old version of the t/rRNA database taken from the original srna tools programs. The updated database is likely to be much larger and therefore will add to the processing time.

    • Hi there! I was trying to install srna-workbenchV3.0.dmg (98.2 MB) using
      Mac OSX. The packaging installer looks good to me, and as I double
      clicked the srna-workbench icon, I could see that it’s loading jvm
      mircat filter adapter removal etc but somehow the installer eventually
      closed by itself and nothing happened afterwards. Any similar thing
      happened to osx users?

      • sRNA Workbench Admin

        Hi,

        Please try to download the latest version of the Workbench (v4.4).
        The older versions of the tools can be accessed through the menu.

        Irina Mohorianu