science/nifticlib3.0.1

science/nifticlib: Update to 3.0.1

Numerous fixes and enhancements since 2.0.0
Changes: https://github.com/NIFTI-Imaging/nifti_clib/commits/master/

No longer conflicts with science/afni
Release to ports@

Reported by:    Repology

science/nifticlib: Sanitize MANPREFIX

Approved by:    portmgr (blanket)

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)

*/*: Remove redundant '-[0-9]*' from CONFLICTS

The conflict checks compare the patterns first against the package
names without version (as reported by "pkg query "%n"), then - if
there was no match - agsinst the full package names including the
version (as reported by "pkg query "%n-%v").

Many CONFLICTS definitions used patterns like "bash-[0-9]*" to filter
for the bash package in any version. But that pattern is functionally
identical with just "bash".

Approved by:	portmgr (blanket)

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

Remove # $FreeBSD$ from Makefiles.

science/nifticlib: fix build

Add MAKE_JOBS_UNSAFE=yes to fix build:
nifti_stats.c:2:22: error: nifticdf.h: No such file or directory
nifti_stats.c: In function 'main':
nifti_stats.c:30: error: 'inam' undeclared (first use in this function)
nifti_stats.c:30: error: (Each undeclared identifier is reported only once
nifti_stats.c:30: error: for each function it appears in.)

Approved by:	mat (mentor)
Differential Revision:	https://reviews.freebsd.org/D20500

Multiple ports: Change maintainer email bacon4000@gmail.com to jwb@FreeBSD.org Remove Created by comments for same user

Approved by: jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D14128

Pass -fPIC when building the port's static libraries.

This makes it possible to use those libraries with shared libraries on at least
amd64.

While here, set LICENSE and drop MAKE_JOBS_UNSAFE.

PR:		209982
Submitted by:	Jason Bacon <bacon4000@gmail.com> (maintainer)
MFH:		2016Q4

- Update maintainer mail address - Update/Remove MASTER_SITE

PR:		204755
Submitted by:	 jwbacon@tds.net (maintainer)
Approved by:	mat (mentor)
Differential Revision:	D4493

- Mark MAKE_JOBS_UNSAFE, fails in parallel build:

nifti_stats.c:2:10: fatal error: 'nifticdf.h' file not found

- Use MANPREFIX

Approved by:	portmgr blanket

Restore r323814 to remove MAKE_JOBS_UNSAFE.

Reported by:	danfe
Approved by:	maintainer time-out

Update to v2.0.0 and patch for clang.

PR:		ports/183454
Submitted by:	Jason Bacon <jwbacon (at) tds.net> (maintainer)

Add NO_STAGE all over the place in preparation for the staging support (cat: science)

- Try to unbreak parallel builds (-jX) - Trim Makefile header, convert USE_GMAKE - Install manpage relative to MANPREFIX - Replace tab with space after WWW line

Reported by:	pointyhat-west

- Fix typos in COMMENT - Enforce the now clarified rules from the Porter's Handbook (e.g. no dots, no   A/An, etc.)

- remove MD5

- Switch SourceForge ports to the new File Release System: categories starting with P,R,S

Update maintainer's email address.  Had already been done for his other ports.

- Update to 1.1.0

PR:		133337
Submitted by:	Wen Heping <wenheping@gmail.com>

NIfTI-1 is a new Analyze-style data format, proposed by the NIfTI DFWG as a short-term measure to facilitate inter-operation of functional MRI data analysis software packages.

WWW:	http://nifti.nimh.nih.gov/

PR:		ports/112183
Submitted by:	Jason W. Bacon