Update of /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci
In directory sfp-cvsdas-3.v30.ch3.sourceforge.com:/tmp/cvs-serv20559
Modified Files:
emboss.info emboss.patch
Log Message:
new upstream version
Index: emboss.patch
===================================================================
RCS file: /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci/emboss.patch,v
retrieving revision 1.19
retrieving revision 1.20
diff -u -d -r1.19 -r1.20
--- emboss.patch 15 Apr 2010 02:14:21 -0000 1.19
+++ emboss.patch 24 Jul 2010 19:56:26 -0000 1.20
@@ -1,7 +1,20 @@
-diff -Nurd EMBOSS-6.2.0/ajax/acd/Makefile.in
EMBOSS-6.2.0-patched/ajax/acd/Makefile.in
---- EMBOSS-6.2.0/ajax/acd/Makefile.in 2010-01-15 05:54:39.000000000 -0500
-+++ EMBOSS-6.2.0-patched/ajax/acd/Makefile.in 2010-03-08 08:52:52.000000000
-0500
-@@ -72,7 +72,7 @@
+diff -Nurd EMBOSS-6.3.1/README.fixes EMBOSS-6.3.1-patched/README.fixes
+--- EMBOSS-6.3.1/README.fixes 1969-12-31 19:00:00.000000000 -0500
++++ EMBOSS-6.3.1-patched/README.fixes 2010-07-21 05:25:27.000000000 -0400
+@@ -0,0 +1,9 @@
++The files in this directory are bugfix replacements for files in
++the EMBOSS-6.3.1 distribution. Just drop the replacement files in
++the location shown and redo the 'make install.'
[...6542 lines suppressed...]
-@@ -198,9 +198,8 @@
- ajFmtPrintS(docroot,"%Sprograms%shtml%s",
- docrootinst,SLASH_STRING,SLASH_STRING);
- else
-- ajFmtPrintS(docroot,"%Shtml%semboss%sapps%s",
-- docrootinst,SLASH_STRING,SLASH_STRING,
-- SLASH_STRING);
-+ ajFmtPrintS(docroot,"%Sprograms%shtml%s",
-+ docrootinst,SLASH_STRING,SLASH_STRING);
- }
- }
- else
-@@ -349,4 +348,4 @@
- ajStrDel(&pre);
-
- return;
--}
-+}
-
-
Index: emboss.info
===================================================================
RCS file: /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci/emboss.info,v
retrieving revision 1.38
retrieving revision 1.39
diff -u -d -r1.38 -r1.39
--- emboss.info 15 Apr 2010 02:14:21 -0000 1.38
+++ emboss.info 24 Jul 2010 19:56:26 -0000 1.39
@@ -1,52 +1,46 @@
Package: emboss
-Version: 6.2.0
-Revision: 4
+Version: 6.3.1
+Revision: 1
#Distribution: 10.4, 10.5
+
Depends: <<
%N-ajax6-shlibs (>= %v-%r),
%N-nucleus6-shlibs (>= %v-%r),
%N-plplot3-shlibs (>= %v-%r),
- x11,
- x11-shlibs,
- libpng3-shlibs,
- libjpeg-shlibs,
- gd2-shlibs,
- system-java (>= 1.5.0),
- fontconfig2-shlibs (>= 2.4.1-1),
freetype219-shlibs (>= 2.3.8-2),
- libiconv
+ fontconfig2-shlibs (>= 2.4.1-1),
+ gd2-shlibs,
+ libiconv,
+ libjpeg-shlibs,
+ libpng3-shlibs,
+ system-java (>= 1.5.0),
+ x11,
+ x11-shlibs
<<
+
BuildDepends: <<
- libpng3,
- libjpeg,
- gd2,
- libiconv-dev,
- x11-dev,
- system-java-dev (>= 1.5.0),
- freetype219,
+ fink (>= 0.24.12),
fontconfig2-dev (>= 2.4.1-1),
freetype219 (>= 2.3.8-2),
- fink (>= 0.24.12)
+ gd2,
+ libiconv-dev,
+ libjpeg,
+ libpng3,
+ libtool2 (= 2.2.6b-1),
+ system-java-dev (>= 1.5.0),
+ x11-dev
<<
+
Source: mirror:custom:EMBOSS-%v.tar.gz
CustomMirror: <<
Primary: ftp://emboss.open-bio.org/pub/EMBOSS/
<<
-Source-MD5: 2e2937dd0493814ca0f64981f4c79319
-
-Source2: ftp://emboss.open-bio.org/pub/EMBOSS/fixes/jemboss.jar
-Source2-MD5: 739d0910e28b20c7defef3283b392c8b
-
-Source3: ftp://emboss.open-bio.org/pub/EMBOSS/fixes/density.2.density.gif
-Source3-MD5: e8a55a1427719238d983c078937db4f6
-
-Source4: ftp://emboss.open-bio.org/pub/EMBOSS/fixes/density.3.density.gif
-Source4-MD5: e47d9c3ad7496289d21665edeb7cecdc
+Source-MD5: 04d1179b6261103a77e396d54f8ac38e
#SetCPPFLAGS: -Dstat64=stat
PatchFile: %n.patch
-PatchFile-MD5: 574519343f1dc9078fbe14cef21a6bce
+PatchFile-MD5: 381f5ca50a03fee61b7a24baf5cd87cf
ConfigureParams: <<
--with-java=/System/Library/Frameworks/JavaVM.framework/Versions/1.5.0/Home \
@@ -56,14 +50,6 @@
--docdir=%p/share/EMBOSS
<<
-CompileScript: <<
- mv ../jemboss.jar %b/jemboss/lib/
- mv ../density.2.density.gif %b/doc/programs/html/
- mv ../density.3.density.gif %b/doc/programs/html/
- ./configure %c
- make
-<<
-
Installscript: <<
make install DESTDIR=%d
mkdir -p %i/include/EMBOSS
@@ -76,14 +62,14 @@
Package: %N-ajax6-shlibs
Depends: <<
%N-plplot3-shlibs (>= %v-%r),
- libpng3-shlibs,
- libjpeg-shlibs,
+ fontconfig2-shlibs (>= 2.4.1-1),
+ freetype219-shlibs (>= 2.3.8-2),
gd2-shlibs,
libiconv,
- x11-shlibs,
- fontconfig2-shlibs (>= 2.4.1-1),
- freetype219-shlibs (>= 2.3.8-2)
- <<
+ libjpeg-shlibs,
+ libpng3-shlibs,
+ x11-shlibs
+ <<
DocFiles: ChangeLog COPYING README
Files: <<
lib/EMBOSS/libajax.6*.dylib
@@ -126,16 +112,10 @@
lib/EMBOSS/libepcre*
lib/EMBOSS/libezlib*
include/EMBOSS/aj*.h
- include/EMBOSS/crc32.h
- include/EMBOSS/deflate.h
include/EMBOSS/ens*.h
- include/EMBOSS/exp*.h
- include/EMBOSS/inf*.h
- include/EMBOSS/pcre*.h
- include/EMBOSS/pcre_printint.src
- include/EMBOSS/trees.h
- include/EMBOSS/ucp.h
- include/EMBOSS/z*.h
+ include/eexpat
+ include/epcre
+ include/ezlib
<<
BuildDependsOnly: True
<<
@@ -166,7 +146,15 @@
<<
SplitOff30: <<
Package: %N-plplot3-shlibs
- Depends: libpng3-shlibs, libjpeg-shlibs, gd2-shlibs, libiconv, x11-shlibs,
fontconfig2-shlibs (>= 2.4.1-1), freetype219-shlibs (>= 2.3.8-2)
+ Depends: <<
+ fontconfig2-shlibs (>= 2.4.1-1),
+ freetype219-shlibs (>= 2.3.8-2),
+ gd2-shlibs,
+ libpng3-shlibs,
+ libjpeg-shlibs,
+ libiconv,
+ x11-shlibs
+ <<
# identical Shlibs-supplier package was previously named as "5" and "6"
# uses "3" as of 6.1.0-4 to match .dylib filename
Replaces: %N (<< 5.0.0-1), %N-plplot5-shlibs, %N-plplot6-shlibs
@@ -187,7 +175,7 @@
Files: <<
lib/libeplplot*
lib/EMBOSS/libeplplot*
- include/eplplot/*.h
+ include/eplplot
<<
BuildDependsOnly: True
<<
@@ -198,8 +186,9 @@
<<
DocFiles: <<
- AUTHORS ChangeLog COMPAT COPYING FAQ INSTALL KNOWN_BUGS LICENSE NEWS
PROBLEMS README THANKS
+ AUTHORS ChangeLog COMPAT COPYING FAQ INSTALL KNOWN_BUGS LICENSE NEWS
PROBLEMS README README.fixes THANKS
<<
+
Description: Molecular Biology Open Software Suite
DescDetail: <<
EMBOSS is a free Open Source software analysis package specially
@@ -220,6 +209,7 @@
Install kemboss-qt4 for a GUI that works either in Aqua or X11.
<<
+
DescPort: <<
dmacks added explicit linking to libs that supply symbols used by
the shared libraries here. This prevents things that link against
@@ -230,6 +220,7 @@
against each other and patched to assure use of EMBOSS's own pcre
headers (libpcre doesn't understand ABI compatibility rules:(
<<
+
Maintainer: Koen van der Drift <drift...@users.sourceforge.net>
Homepage: http://emboss.sourceforge.net
License: GPL
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