biology/pear-merger0.9.6_1

biology/pear-merger: Release to ports@

Note to anyone interested in maintaining this port:

Newer versions are available, but cannot be downloaded
from official sources without completing an interactive form.
A license is required, with different terms for commercial and
academic use.

See https://www.h-its.org/software/pear-paired-end-read-merger/

MANPREFIX: eliminate its usage

While here move manpages to share/man

Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)

Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (tcberner)

One more small cleanup, forgotten yesterday. Reported by:	lwhsu

Remove # $FreeBSD$ from Makefiles.

biology/pear-merger: enable on aarch64, armv6, armv7, riscv64

It should build now.

biology/pear-merger: fix build on non-x86

Builds fine with GCC.

For ports on riscv64 that fail the same (or similar ways) to aarch64, mark them BROKEN.

While here, pet portlint (Makevar order).

Approved by:	portmgr (tier-2 blanket)

Mark as broken on aarch64, and, where appropriate, armvX.

While here, pet portlint.

Approved by:	portmgr (tier-2 blanket)

biology/pear-merger: Memory-efficient and accurate paired-end read merger

Approved by:    jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D14959