Date: Fri, 31 Mar 2006 09:43:22 +0000 (UTC) From: Thierry Thomas <thierry@FreeBSD.org> To: ports-committers@FreeBSD.org, cvs-ports@FreeBSD.org, cvs-all@FreeBSD.org Subject: cvs commit: ports UPDATING ports/biology/emboss Makefile distinfo pkg-message pkg-plist ports/biology/emboss/files patch-ajindex.c patch-ajindex.h patch-ajpdb.c patch-ajseqdb.c patch-dbxfasta.c patch-dbxflat.c patch-dbxgcg.c patch-embindex.c patch-embindex.h ... Message-ID: <200603310943.k2V9hMo1056490@repoman.freebsd.org>
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thierry 2006-03-31 09:43:22 UTC
FreeBSD ports repository
Modified files:
. UPDATING
biology/emboss Makefile distinfo pkg-plist
biology/embassy Makefile distinfo pkg-plist
Added files:
biology/emboss/files patch-ajindex.c patch-ajindex.h
patch-ajpdb.c patch-ajseqdb.c
patch-dbxfasta.c patch-dbxflat.c
patch-dbxgcg.c patch-embindex.c
patch-embindex.h
patch-emboss.default.template
patch-marscan.c pkg-message.in
pre-install.in
Removed files:
biology/emboss pkg-message
biology/embassy/files domainatrix-patch-Makefile.in
emnu-patch-Makefile.in
Log:
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)
Revision Changes Path
1.304 +17 -1 ports/UPDATING
1.6 +22 -18 ports/biology/embassy/Makefile
1.4 +39 -24 ports/biology/embassy/distinfo
1.2 +0 -11 ports/biology/embassy/files/domainatrix-patch-Makefile.in (dead)
1.2 +0 -11 ports/biology/embassy/files/emnu-patch-Makefile.in (dead)
1.3 +177 -124 ports/biology/embassy/pkg-plist
1.47 +15 -14 ports/biology/emboss/Makefile
1.26 +3 -3 ports/biology/emboss/distinfo
1.1 +5134 -0 ports/biology/emboss/files/patch-ajindex.c (new)
1.1 +170 -0 ports/biology/emboss/files/patch-ajindex.h (new)
1.1 +67 -0 ports/biology/emboss/files/patch-ajpdb.c (new)
1.1 +195 -0 ports/biology/emboss/files/patch-ajseqdb.c (new)
1.1 +89 -0 ports/biology/emboss/files/patch-dbxfasta.c (new)
1.1 +146 -0 ports/biology/emboss/files/patch-dbxflat.c (new)
1.1 +96 -0 ports/biology/emboss/files/patch-dbxgcg.c (new)
1.1 +115 -0 ports/biology/emboss/files/patch-embindex.c (new)
1.1 +96 -0 ports/biology/emboss/files/patch-embindex.h (new)
1.1 +20 -0 ports/biology/emboss/files/patch-emboss.default.template (new)
1.1 +72 -0 ports/biology/emboss/files/patch-marscan.c (new)
1.1 +27 -0 ports/biology/emboss/files/pkg-message.in (new)
1.1 +21 -0 ports/biology/emboss/files/pre-install.in (new)
1.7 +0 -22 ports/biology/emboss/pkg-message (dead)
1.23 +1684 -1599 ports/biology/emboss/pkg-plist
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