Hotfix for importing sequence read sets from EMBL ENA

Question: 

During import of a sequence read set as link via its ENA accession number, the error message 'None of the accession codes could be found on EMBL-EBI (ENA).' appears. When submitting a job for a sequence read set linked to ENA that was imported earlier, I get following error message: 'All SRS experiments have invalid links'. How can this be resolved?

Answer: 

EMBL-EBI recently changed their protocol to check if an accession number exists in their European Nucleotide Archive (ENA), which results in the above error message. This prevents the import as links from EMBL-EBI ENA as well as the submission of jobs for sequence read sets imported from ENA earlier. Sequence read sets (SRS) imported as links from NCBI SRA, Amazon S3, Aliyun OSS or local file servers are not affected. This issue is resolved in the latest BIONUMERICS release, which can be obtained from our software download page.

To restore the functionality without the need for administrator rights, you can download a hotfix for this issue.

Proceed as follows to install the hotfix in a BIONUMERICS database:

  1. Save the hotfix_EMBL_ENA_import_links.zip file on your hard drive.
  2. Open a BIONUMERICS database and select File > Install / remove plugins....
  3. In the Plugins dialog box that appears, click on the Database functionality tab.
  4. Press the <Add> button, browse for the hotfix_EMBL_ENA_import_links.zip file and press <Open>.
  5. Press <Yes> to confirm the addition of a single Python script to the database and <Exit> to close the Plugins dialog box.
  6. Close and re-open the BIONUMERICS database.

The above procedure should be followed for any database that has the WGS tools plugin installed and in which you use sequence read sets imported from EMBL-EBI ENA.

Package(s):

Applicable for: 
Version 7.6 - 8.0