embassy 6.2.0_1 biology =0

A collection of contributed EMBOSS applications
Maintained by: fernan@iib.unsam.edu.ar
Port Added: 26 Nov 2004 16:35:20
License: not specified in port

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EMBASSY is a collection of contributed EMBOSS software. From the web
pages:

 "EMBOSS is GPL licensed. The libraries are under the Lesser GPL (LGPL).
 Programs which have been included from third parties who have their own
 licencing terms are kept apart under the EMBASSY grouping.

 This allows the EMBOSS libraries to link to other software, and only
 requires that software to have an LGPL-compatible licence. Phylip, for
 example, fits this model.

 But, to the user they do look exactly like EMBOSS aplications."

WWW: http://emboss.sourceforge.net/apps/#Embassy

CVSWeb : Sources : Main Web Site : Distfiles Availability : PortsMon

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NOTE: FreshPorts displays only required dependencies information. Optional dependencies are not covered.
Required To Build: devel/gmake, x11/libX11, x11/libXpm
Required To Run: x11/libX11, x11/libXpm
Required Libraries: biology/emboss, converters/libiconv, x11-toolkits/open-motif
There are no ports dependent upon this port

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To install the port: cd /usr/ports/biology/embassy/ && make install clean
To add the package: pkg_add -r embassy

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Configuration Options

===> The following configuration options are available for embassy-6.2.0_1:
     DOMAINATRIX=on (default) "Protein domain apps"
     DOMALIGN=on (default) "Protein domain apps"
     DOMSEARCH=on (default) "Protein domain apps"
     SIGNATURE=on (default) "Protein domain apps"
     STRUCTURE=on (default) "Protein domain apps"
     EMNU=on (default) "EMBOSS simple menu"
     ESIM4=on (default) "Align cDNA/EST to genome"
     HMMER=on (default) "HMM alignment and searches"
     MEMENEW=on (default) "Motif detection"
     MSE=on (default) "A multiple sequence screen editor"
     MYEMBOSS=on (default) "Examples for developers of EMBOSS apps"
     PHYLIPNEW=on (default) "Phylogeny inference"
     TOPO=on (default) "Transmembrane display"
     VIENNA=on (default) "RNA folding"
     MIRA=on (default) "Whole Genome shotgun and EST assembler"
     IPRSCAN=on (default) "InterPro scan"
     CBSTOOLS=on (default) "CBS Tools"
===> Use 'make config' to modify these settings

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Master Sites:

ftp://emboss.open-bio.org/pub/EMBOSS/

ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/emboss/

- Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS)
- Fix all ports that add {CPP,LD}FLAGS to *_ENV to modify flags instead

PR:             157936
Submitted by:   myself
Exp-runs by:    pav
Approved by:    pav

Bump PORTREVISION after open-mofit update

- Get Rid MD5 support

- Update to 6.2.0

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

- update to 1.4.1
Reviewed by:    exp8 run on pointyhat
Supported by:   miwi

- update to jpeg-8

- Update MASTER_SITES

PR:             137750
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)

- bump all port that indirectly depends on libjpeg and have not yet been bumped
or updated
Requested by:   edwin

- Update to 6.0.0
- Unbreak

PR:             135376
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)

- Mark BROKEN does not compile

Submitted by:   maintainer via private mail

- Update to 5.0.0

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

- Remove USE_XLIB/USE_X_PREFIX/USE_XPM in favor of USE_XORG
- Bump PORTREVISION

Approved by:    portmgr (xorg cleanup)

- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.

- Fix after objformat removal

Reported by:    pointyhat

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.

Add missing USE_ICONV

SHA256ify

Approved by:    krion@

- Update to 2.10.0

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

- Fix OPTIONS handling

Pointy hat to:  sem

BROKEN: Broken distinfo file

[new port] biology/embassy

PR:             ports/74330
Submitted by:   Fernan Aguero <fernan(at)iib.unsam.edu.ar>

12 vulnerabilities affecting 17 ports have been reported in the past 14 days

^* - modified, not new

All vulnerabilities