biology/fastq-trim 0.1.4

biology/fastq-trim: Update to 0.1.4

Add automatic 5' quality trimming
Changes: https://github.com/auerlab/fastq-trim/releases

biology/fastq-trim: Move man pages to share/man

Approved by:	portmgr (blanket)

biology/fastq-trim: Update to 0.1.3

fastq-scum: Add zstd and lz4 support
Add low_qual_base_count update for paired end reads
Clean up and expand final output format
A few other minor improvements
Updates for latest libxtend API
Improvements to test script

Changes: https://github.com/auerlab/fastq-trim/releases

biology/fastq-trim: Update to 0.1.2

Minor enhancements, fixes for SunOS

Changes:    https://github.com/auerlab/fastq-trim/releases

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)

biology/fastq-trim: Update to 0.1.1.4

Forgot to update fastq-vis -> fastq-scum in docs in previous update

biology/fastq-trim: Update to 0.1.1.2

Replace crash with run with no arguments with help msg
fastq-vis -> fastq-scum (better name for contamination viewer)

biology/fastq-trim: Lightening fast sequence read trimmer

Fastq-trim is a lightening fast read trimming tool for QA of
DNA and RNA reads prior to analyses such as RNA-Seq.