Update of /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci
In directory sc8-pr-cvs17.sourceforge.net:/tmp/cvs-serv3367
Modified Files:
emboss.info emboss.patch
Log Message:
upstream patch
Index: emboss.patch
===================================================================
RCS file: /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci/emboss.patch,v
retrieving revision 1.9
retrieving revision 1.10
diff -u -d -r1.9 -r1.10
--- emboss.patch 17 Jan 2008 02:46:48 -0000 1.9
+++ emboss.patch 20 Jan 2008 13:32:07 -0000 1.10
@@ -22,6 +22,7 @@
am__libajaxg_la_SOURCES_DIST = ajgraph.c ajhist.c
@[EMAIL PROTECTED] = $(am__objects_2)
libajaxg_la_OBJECTS = $(am_libajaxg_la_OBJECTS)
+
diff -Naur EMBOSS-5.0.0/ajax/ajindex.c EMBOSS-5.0.0-patched/ajax/ajindex.c
--- EMBOSS-5.0.0/ajax/ajindex.c 2007-07-06 08:18:48.000000000 -0400
+++ EMBOSS-5.0.0-patched/ajax/ajindex.c 2008-01-09 13:50:33.000000000
-0500
@@ -58,6 +59,58 @@
}
+diff -Naur EMBOSS-5.0.0/nucleus/embindex.c
EMBOSS-5.0.0-patched/nucleus/embindex.c
+--- EMBOSS-5.0.0/nucleus/embindex.c 2007-07-06 08:15:00.000000000 -0400
++++ EMBOSS-5.0.0-patched/nucleus/embindex.c 2008-01-19 08:09:49.000000000
-0500
+@@ -1196,13 +1196,13 @@
+ entry->txorder = (entry->pagesize - 60) / ((entry->txlen + 1) + 12);
+ entry->txfill = (entry->pagesize - 16) / (entry->txlen + 28);
+
+- entry->kwsecorder = (entry->pagesize - 60) / ((entry->idlen + 1) + 12);
+- entry->desecorder = (entry->pagesize - 60) / ((entry->idlen + 1) + 12);
+- entry->txsecorder = (entry->pagesize - 60) / ((entry->idlen + 1) + 12);
+-
+- entry->kwsecfill = (entry->pagesize - 16) / (entry->idlen + 4);
+- entry->desecfill = (entry->pagesize - 16) / (entry->idlen + 4);
+- entry->txsecfill = (entry->pagesize - 16) / (entry->idlen + 4);
++ entry->kwsecorder = (entry->pagesize - 60) / ((entry->kwlen + 1) + 12);
++ entry->desecorder = (entry->pagesize - 60) / ((entry->delen + 1) + 12);
++ entry->txsecorder = (entry->pagesize - 60) / ((entry->txlen + 1) + 12);
++
++ entry->kwsecfill = (entry->pagesize - 16) / (entry->kwlen + 4);
++ entry->desecfill = (entry->pagesize - 16) / (entry->delen + 4);
++ entry->txsecfill = (entry->pagesize - 16) / (entry->txlen + 4);
+
+ entry->idsecorder = (entry->pagesize - 60) / 24;
+ entry->idsecfill = (entry->pagesize - 60) / 20;
+@@ -1251,7 +1251,7 @@
+ entry->cachesize,
+ entry->idsecorder, slevel,
+ entry->idsecfill, count,
+- entry->kwlen);
++ entry->idlen);
+ if(!entry->idcache)
+ ajFatal("Cannot open ID index");
+
+@@ -1267,7 +1267,7 @@
+ entry->cachesize,
+ entry->acsecorder, slevel,
+ entry->acsecfill, count,
+- entry->kwlen);
++ entry->aclen);
+ if(!entry->accache)
+ ajFatal("Cannot open ACC index");
+
+@@ -1282,7 +1282,7 @@
+ entry->cachesize,
+ entry->svsecorder, slevel,
+ entry->svsecfill, count,
+- entry->kwlen);
++ entry->svlen);
+ if(!entry->svcache)
+ ajFatal("Cannot open SV index");
+
+
diff -Naur EMBOSS-5.0.0/emboss/psiphi.c EMBOSS-5.0.0-patched/emboss/psiphi.c
--- EMBOSS-5.0.0/emboss/psiphi.c 2007-07-06 08:15:29.000000000 -0400
+++ EMBOSS-5.0.0-patched/emboss/psiphi.c 2007-07-27 05:28:27.000000000
-0400
Index: emboss.info
===================================================================
RCS file: /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci/emboss.info,v
retrieving revision 1.20
retrieving revision 1.21
diff -u -d -r1.20 -r1.21
--- emboss.info 17 Jan 2008 02:46:48 -0000 1.20
+++ emboss.info 20 Jan 2008 13:32:07 -0000 1.21
@@ -1,6 +1,6 @@
Package: emboss
Version: 5.0.0
-Revision: 5
+Revision: 6
#Distribution: 10.4
Depends: %N-ajax5-shlibs (>= %v-%r), %N-nucleus5-shlibs (>= %v-%r),
%N-plplot5-shlibs (>= %v-%r), x11, x11-shlibs, libpng3-shlibs, libjpeg-shlibs,
gd2-shlibs, system-java14
BuildDepends: libpng3, libjpeg, gd2, libiconv-dev, x11-dev, system-java14-dev
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