JBrowse 1.10.7 maintenance release

JBrowse 1.10.7 has been released, with some important bug fixes and added support for displaying feature density histograms from REST stores.

Files for download:

Minor improvements

  • Added an optional stats/regionFeatureDensities endpoint to the
    REST API that makes it possible to provide binned feature counts
    that HTMLFeatures tracks can use to display feature histograms.
    Thanks to Stuart Watt and Daniel Troesser for pointing out the need
    for this (issue #365).

Bug fixes

  • Fixed a bad bug introduced in 1.10.6 in which FASTA files with line
    lengths longer than the configured chunk size were not correctly
    formatted. Thanks to Jean-Jack Riethoven for pointing this out
    (issue #363).

  • Fixed a bug introduced in 1.10.6 in which prepare-refseqs.pl would
    not respect the –noseq command-line option when using –fasta.

  • Fixed bug in which name or seq_id attributes are required for
    reference sequence features. Thanks to Daniel Troesser for
    pointing this out.

  • Fixed a bug that may have prevented some types of VCF files from
    being displayed (error message referring to inheritedFilters).

  • Fixed a bug in which “Zoom in to see feature” in Sequence tracks
    would wrap downwards below track at some zoom levels and window

  • Fixed an off-by-one error in UTR attributes manufactured by the
    impliedUTRs mechanism of the ProcessedTranscript glyph. Thanks
    to Ben Booth for pointing this out (issue #362).

  • Fixed a bug in which score attributes of features were not being
    recorded by biodb-to-json.pl. Thanks to HongKee Moon for
    pointing this out (issue #364).

  • Removed a stray use of Carp::Always in GFF3-processing Perl code
    that may have caused problems in some installations.

About Robert Buels

JBrowse Lead Developer
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