21:34 Jason W. Bacon (jwb) 

biology/emboss: Add "emboss" command in ${LOCALBASE}/bin

Standard emboss commands are installed under a special prefix because
of multiple conflicts.  The emboss command turns the standard commands
into subcommands, so no special PATH is needed.

    /usr/local/emboss/bin/needle [args]

can be run as

    emboss needle [args]

    c68b6dc

15:13 Jason W. Bacon (jwb) 

biology/emboss: Put emboss-shell in default PATH

PREFIX is overridden by default in the port Makefile, so PREFIX/bin
is not normally in PATH.  The purpose of emboss-shell is to prepend
PREFIX/bin to PATH to give access to emboss tools.

Also fix tcsh detection.

PR:             258316

    e47c577

14:21 Jason W. Bacon (jwb) 

biology/emboss: Add emboss-shell: Run subshell with proper PATH

Also silence portlint and stage-qa warnings

PR:             258316
Approved by:    wen

    fa2e0b8

07:10 bapt 

Cleanup plist

 

03:28 miwi 

- Update to 6.6.0
- Stage support

PR:		190508
Submitted by:	Muhammad Moinur Rahman

 

01:16 wen 

- Update to 6.2.0

Submitted by:   Wen Heping(myself)
Approved by:    maintainer(via Email)

15:16 miwi 

- Force commit to correct the entry
- Update to 6.0.1

PR:             132504
Submitted by:   Wen Heping <wenheping@gmail.com>
Approved by:    maintainer

15:14 miwi 

- Update to 0.1.24

PR:             132527
Submitted by:   Wen Heping <wenheping@gmail.com>
Approved by:    maintainer

07:22 rafan 

- Update to 5.0.0

PR:             ports/122437
Submitted by:   Fernan Aguero <fernan at iib.unsam.edu.ar> (maintainer)

07:21 rafan 

- Sort pkg-plist before updating to 5.0.0

PR:             ports/122437
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)

09:43 thierry 

For EMBOSS:

        This patch brings EMBOSS up to date with the current version.

        i.   The patches included in files/ are bugfixes for files in
             EMBOSS-3.0.0 that appeared after the release. They are
             documented in ftp://emboss.open-bio.org/pub/EMBOSS/fixes/README

             This is just 'for the record' so that we remember to remove these
             patches in the next update.

        ii.  EMBOSS is now installed by default in LOCALBASE/emboss
             This is to avoid CONFLICTS with other ports that install files
             with the same names. Installing EMBOSS to another PREFIX is also
             possible.

        iii. now EMBASSY and EMBOSS both store their distfiles in the same
             DIST_SUBDIR

        iv.  use built-in PKGMESSAGE and SUB_FILES instead of doing it the old
             (manual) way

        For EMBASSY:

        This update brings embassy in sync with the update of EMBOSS to 3.0.0.

        Things that changed from previous version of the port:

        i.  embassy now installs by default in $LOCALBASE/emboss (the
            new default PREFIX for emboss as well).

        ii. changed DIST_SUBDIR so that all the distfiles are put together with
            emboss. This makes sense(TM)

        iii. incorporated new EMBASSY apps (this accounts for the changes in
             OPTIONS and pkg-plist)

        iv.  removed obsoleted patches

        Finally, I included a sample text that could go in UPDATING.

PR:             93053
Submitted by:   Fernan Aguero <fernan (at) iib.unsam.edu.ar> (maintainer)

10:40 ade 

Conversion to a single libtool environment.

Approved by:    portmgr (kris)

18:26 pav 

- Update to 2.10.0

PR:             ports/81579
Submitted by:   "Choe, Cheng-Dae" <whitekid@gmail.com>
Approved by:    Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)

01:11 sem 

- Update to 2.9.0
- Pass maintainership to submitter

PR:             ports/74333
Submitted by:   Fernan Aguero <fernan(at)iib.unsam.edu.ar>

00:25 kris 

Add missing files

10:09 wjv 

- Update to version 2.4.1
- Unmark BROKEN
- Start adding support for Jemboss Java-based GUI (not active yet)

PR:             40198 ; many private requests
Submitted by:   Tilman Linneweh <tilman@arved.de> (2.4.1 update)

14:04 wjv 

- Update to version 2.2.0   - Update included EMBASSY package EMNU   - Fix a
long-standing bug in Makefile that would preclude PKGMESSAGE from     being
generated properly   - Consider this an interim update merely to track the
latest version - more     work is required to activate the newly included
"Jemboss" Java GUI     interface    

12:32 wjv 

- Update port to version 2.0.1   - Add two new EMBASSY applications, MEME and
HMMER.    

13:11 wjv 

Update to 1.13.3; remove bogus file.    

15:34 kevlo 

Update to version 1.13.1    

13:18 jeh 

Update the EMBOSS suite (biology/emboss) to version 1.12.0    

10:33 nbm 

Update the EMBOSS suite to v1.11.0    

15:58 kevlo 

Update to version 1.10.1    

15:51 kevlo 

Update to version 1.10.0    

15:48 kevlo 

- Update EMBOSS (biology/emboss) from 1.9.0 to 1.9.1   - Update the EMBASSY
package EMNU from 1.0.2 to 1.0.3   - Merged the four pkg-plist* files into one  
 

11:36 kevlo 

Upgrade to version 1.9.0    

01:43 jeh 

- Update port biology/emboss from 1.7.0 to 1.8.0    

11:49 jeh 

Update to version 1.7.0    

05:54 kevlo 

- Update to 1.6.0   - Reorder packing list