- Style fixes
- Simplify MASTER_SITES
- Clarify LICENSE
- Add LICENSE_FILE
- Switch to PLIST_FILES/PORTDATA/PORTDOCS
- Add LICENSE
- Switch to PLIST_FILES/PORTDATA
- Minor style fixes
- Switch to PLIST_FILES/PORTDATA/PORTDOCS
- Update to 0.7.2
www/glassfish: 3.1.2.2 -> 4.1

Changes since 3.1.2.2:
https://glassfish.java.net/docs/4.0/release-notes.pdf
https://glassfish.java.net/docs/4.1/release-notes.pdf

PR:		194097
Submitted by:	Enrico M. Crisostomo <enrico.m.crisostomo@gmail.com>
Approved by:	cjr@cruwe.de (maintainer)
Document OpenSSL multiple vulnerabilities.
Update to signing-party 1.1.10
Update to 1.01j.

With hat:	ports-secteam
Security:	vuxml 03175e62-5494-11e4-9cc1-bc5ff4fb5e7b
Security:	CVE-2014-3513
Security:	CVE-2014-3566
Security:	CVE-2014-3567
Security:	CVE-2014-3568
Update to 1.01j.

With hat:	ports-secteam
Security:	vuxml 03175e62-5494-11e4-9cc1-bc5ff4fb5e7b
Security:	CVE-2014-3513
Security:	CVE-2014-3566
Security:	CVE-2014-3567
Security:	CVE-2014-3568
biology/seqtools: 4.28 -> 4.29

- Blixem
  o Added the facility to run Dotter on an ad-hoc sequence (RT:408836).
  o Added the facility to run Dotter against a transcript.
- Dotter
  Minimise the greyramp tool to a simple contrast slider. Use
  Ctrl-G to toggle between this and the full greyramp tool.
- Belvu
  Fix a bug with tree bootstrapping in Belvu.
Update to calc 2.12.5.0
Merge branch 'master' of https://github.com/freebsd/freebsd-ports