biology/pbbam 0.18.0_11 DragonFly

PacBio BAM C++ library, with SWIG bindings

System: DragonFly
Repository: DPorts
Maintainer: [email protected] (as in FreeBSD)
License: BSD3CLAUSE
Categories: biology
Package size: 703.6 KiB, 3058.3 KiB installed

Description

As of the 3.0 release of SMRTanalysis, PacBio is embracing the industry standard BAM format for (both aligned and unaligned) basecall data files. We have also formulated a BAM companion file format (bam.pbi) enabling fast access to a richer set of per-read information as well as compatibility for software built around the legacy cmp.h5 format.

The pbbam software package provides components to create, query, & edit PacBio BAM files and associated indices. These components include a core C++ library, bindings for additional languages, and command-line utilities.

In the other systems

The newest version among them is 0.18.0, as upstream numbers it.

System

Port

Version

Vulnerabilities

Status

Maintainer

Last update

DragonFly

biology/pbbam

0.18.0_11 newest

none known

[email protected]

FreeBSD

biology/pbbam

0.18.0_14 newest

none known

[email protected]

2026-09-29

HardenedBSD

biology/pbbam

0.18.0_14 newest

no data

[email protected]

GhostBSD

biology/pbbam

0.18.0_13 newest

no data

[email protected]

Install

Binary package:

pkg install pbbam

From DPorts:

cd /usr/dports/biology/pbbam && make install clean

Dependency graph

Ports that need it on the left, what it needs to run on the right; at most 8 of each. "Dependencies" below lists them all.

graph LR
  me["biology/pbbam"]
  me --> d0["biology/htslib"]
  me --> d1["devel/boost-libs"]
  me --> d2["lang/python311"]
  classDef this fill:#ab2b28,color:#ffffff,stroke:#ab2b28
  class me this

Dependencies

Run dependencies 3

No port depends on this one.

Configuration

No options to configure.

Service scripts: none

Message after installing

===>   NOTICE:

The pbbam port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://docs.freebsd.org/en/articles/contributing/#ports-contributing