Continuous build

Build log: https://github.com/asl/BandageNG/actions/runs/12203076879

v2022.09

IMPORTANT: This is not the latest release. Bandage-NG uses continuous delivery, take the latest snapshot from https://github.com/asl/BandageNG/releases/tag/continuous

What's Changed

• Ensure we're using unsigned ints for node lengths #117
• Relax a bit GFA parsing 040eca2

Full Changelog: v2022.08...v2022.09

v2022.08

What's Changed

• Implement minimap2 alignment #112
• Implement HMMER graph search #113
• Allow alignment to the paths #114
• Completely refactored BLAST alignment. Much faster and more robust.
• Usual portion of bugfixes and performance improvements

Full Changelog: v2022.07...v2022.08

BandageNG 2022.07

What's Changed

• Deprecate LastGraph format #82
• Refactor graph: preserve custom labels, colors, emit paths and jump links #83
• Preliminary support for GAF reading #86
• Add SPAligner TSV path loading #88
• Skip, not throw on malformed tags #92
• Switch from recursive initial node collection to iterative #96
• Fix graph components packing #97
• Refactor BLAST temp file and queries handling, massive speed-up here #102
• Add UI for path-based queries #104
• Support custom pen style and edge line widths #107
• Usual improvements in memory consumption and processing speed

Full Changelog: v2022.06...v2022.07

v2022.07.16

What's Changed

• Deprecate LastGraph format #82
• Refactor graph: preserve custom labels, colors, emit paths and jump links #83
• Preliminary support for GAF reading #86
• Add SPAligner TSV path loading #88
• Do not throw on malformed tags #92

Full Changelog: v2022.06.1...v2022.07.16

BandageNG 2022.06

What's Changed

• Added support for GFA v1.2: jump links, gapped paths, etc.
• Faster layout itself (approx 1.5x)
• Multithreaded layout (per graph component), on top of the previous feature
• Layout could be saved / loaded
• Reduced memory consumption of the graph after layout

Full Changelog: v0.9.6...v2022.06

BandageNG v0.9.6

What's Changed

• Changed arrowhead shape
• Show node / edge tags
• Allow colors from CSV columns
• Allow path names in CSV data
• Add coloring by tag name and GC content
• Hide sections by default

Fixes

• Ensure options are split properly from --blastp
• Gracefully handle optional BED columns

Full Changelog: v0.9.5.1...v0.9.6

BandageNG v0.9.5.1

This is a bug-fix release that includes fixes for the following issues:

• Allow loading GFA files with mixed Segment/Link lines
• Relax handling of graphs w/o sequences
• Cannot load a file containing segments without sequence
• Hanging on graph load
• Allow +/- in oriented segment names

BandageNG v0.9.5

This is a preliminary release of BandageNG – a reincarnation of well-known and widely-used Bandage tool. This release features the following new changes:

• Significantly reduced memory consumption (sometimes 5x-10x depending on the input graph size)
• Much faster GFA loading
• Added support for GFA paths loading and visualization
• Added initial support for loading node annotations from BED files
• Some changes and tweaks here and there

Full Changelog: v0.8.1...v0.9.5