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vg 1.50.0 - Monopoli
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@glennhickey glennhickey released this 01 Aug 12:43
· 2163 commits to master since this release
v1.50.0
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Learn about vigilant mode.

Download for Linux

Don't forget to mark the static binary executable:

chmod +x vg

Docker Image: quay.io/vgteam/vg:v1.50.0

Buildable Source Tarball: vg-v1.50.0.tar.gz

Includes source for vg and all submodules. Use this instead of Github's "Source Code" downloads; those will not build as they do not include code for bundled dependencies that the vg build process needs.

This release includes:

  • CI test jobs now cache pulled Docker images
  • GAF output should now have more correct path end positions and block lengths
  • Paths that look like PanSN but aren't, due to having a non-numeric haplotype number field, will no longer be parsed, and should thus no longer produce crashes due to parsing failures.
  • Haplotype sampling now copies the vg node to GFA segment translation correctly from the original graph.
  • vg minimizer requires a distance index for building a minimizer index.
  • -S option added to vg call to select reference paths by sample name. This is more convenient as it allows, ex -S GRCh38 to be used in place of -p GRCh38#0#chr1 -p GRCh38#0#chr2 ... Such selection is necessary when the graph has more than one reference sample and vg call will now refuse to handle graphs with multiple reference samples unless paths are selected with -S or -p.
  • vg filter can filter to only mapped or only unmapped reads
  • vg deconstruct changed back to writing the full sample / hap/ contig name in VCF contig field. In order to just write the contig name (like in the past few versions of vg), use the new -C option.

Updated Submodules

  • gbwtgraph
  • gcsa2
  • libhandlegraph
  • libvgio
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