Release notes:

• read validation context: upgraded to htsjdk version: 2.21.3 used for BAM and CRAM validation.
• read validation context: BAM file validation fix (https://github.com/enasequence/webin-cli/issues/29).

Release notes:

• genome, transcriptome, sequence context for Salmonella: /serotype qualifier is automatically changed to /serovar qualifier and 'serotype' literal is removed from the qualifier value
• Temporary files previously ending with .fixed have been renamed to .tmp

Release notes:

• Uses FTPS instead of FTP to upload files.

Release notes:

• transcriptome context: ASSEMBLY_TYPE is mandatory in manifest file, allowed values are
  • isolate
  • metatranscriptome
• reads context: Support for N=new platform DNBSEQ(Sequencers based on DNBSEQ by MGI Tech) and their instrument models added.
• genome/sequence/transcriptome contexts: throw valid error message and reject if feature location(s) is/are invalid.

Release notes:

• Added support for GenBank flat file format for genome, transcriptome, sequence contexts.

Release notes

• genome/sequence/transcriptome contexts: Abutting genes are now allowed to have adjacent exons.

Release notes:

• genome context: New assembly type “COVID-19 outbreak” added.
• genome/sequence/transcriptome contexts: Manifest file content will be preserved part of submission.xml. of the manifest file

Release notes:

• reads context : Two new library strategies: GBS (Genotyping by Sequencing) and ChM-Seq
• genome context : Ignore minimum contig count check for binned metagenomes and ignore maximum contig count check for primary metagenomes

Release notes:

• genome context: circular topology can now be defined in flatfile. Before now, linear topology was always assumed.
• genome context: topology can now be defined in the chromosome list file by prefixing the chromosome type with 'circular-' or 'linear-', e.g. circular-chromosome. Please note that linear topology is the default.
• sequence/genome/transcriptome context: submitter provided secondary accessions will be ignored.
• genome context: one of the isolate/strain/environment_sample qualifier is now mandatory for bacteria and archaea.

Release notes:

• New countries 1)North Macedonia 2) Eswatini have been added for genome , sequence and transciptome contexts.
• Flatfiles with invalid DE lines will be rejected for sequence context.

Release notes

• New context taxrefset added for taxonomy reference sets.

Release notes:

• genome context: backward incompatible change that requires major version increment. Assembly type is now mandatory in Webin 2.*. In Webin 1.* assembly type defaulted to "clone or isolate".