[med-svn] r1771 - trunk/packages/ncbi-epcr/trunk/debian/patches

[tille at alioth.debian.org]

Author: tille
Date: 2008-04-16 16:27:11 +0000 (Wed, 16 Apr 2008)
New Revision: 1771

Added:
   trunk/packages/ncbi-epcr/trunk/debian/patches/10_gcc4.3.patch
Modified:
   trunk/packages/ncbi-epcr/trunk/debian/patches/series
Log:
After problems with upload I tried to rebuild and detected 4.3 problems.  This is solved now.  I'll remove the old tag and will tag this as the 2.3.9-1 upload.


Added: trunk/packages/ncbi-epcr/trunk/debian/patches/10_gcc4.3.patch
===================================================================
--- trunk/packages/ncbi-epcr/trunk/debian/patches/10_gcc4.3.patch	                        (rev 0)
+++ trunk/packages/ncbi-epcr/trunk/debian/patches/10_gcc4.3.patch	2008-04-16 16:27:11 UTC (rev 1771)
@@ -0,0 +1,75 @@
+--- e-PCR-2.3.9.orig/re-PCR_main.cpp
++++ e-PCR-2.3.9/re-PCR_main.cpp
+@@ -37,6 +37,8 @@
+ #include <errno.h>
+ 
+ #include <stdexcept>
++#include <cstring>
++#include <memory>
+ 
+ USING_NCBI_SCOPE;
+ USING_SCOPE(EPCR_SCOPE);
+--- e-PCR-2.3.9.orig/strref.hpp
++++ e-PCR-2.3.9/strref.hpp
+@@ -32,6 +32,7 @@
+ 
+ #include <epcr/build_cfg.h>
+ #include <string>
++#include <cstring>
+ 
+ BEGIN_NCBI_SCOPE
+ BEGIN_SCOPE(EPCR_SCOPE)
+--- e-PCR-2.3.9.orig/fahash_main.cpp
++++ e-PCR-2.3.9/fahash_main.cpp
+@@ -37,6 +37,8 @@
+ #include <math.h>
+ #include <time.h>
+ 
++#include <memory>
++
+ USING_NCBI_SCOPE;
+ USING_SCOPE(EPCR_SCOPE);
+ 
+--- e-PCR-2.3.9.orig/bin-io.hpp
++++ e-PCR-2.3.9/bin-io.hpp
+@@ -35,6 +35,7 @@
+ #include <stdio.h>
+ #include <errno.h>
+ 
++#include <cstring>
+ #include <string>
+ #include <vector>
+ #include <stdexcept>
+--- e-PCR-2.3.9.orig/e-PCR_main.cpp
++++ e-PCR-2.3.9/e-PCR_main.cpp
+@@ -36,6 +36,8 @@
+ #include <errno.h>
+ #include <time.h>
+ 
++#include <memory>
++
+ #ifndef STANDALONE
+ #include <objtools/readers/seqdb/seqdb.hpp>
+ #endif
+--- e-PCR-2.3.9.orig/famap_main.cpp
++++ e-PCR-2.3.9/famap_main.cpp
+@@ -32,6 +32,8 @@
+ #include <string.h>
+ #include <errno.h>
+ 
++#include <cstdlib>
++
+ USING_NCBI_SCOPE;
+ USING_SCOPE(EPCR_SCOPE);
+ 
+--- e-PCR-2.3.9.orig/fahash_create2.cpp
++++ e-PCR-2.3.9/fahash_create2.cpp
+@@ -38,6 +38,8 @@
+ #include <errno.h>
+ #include <assert.h>
+ 
++#include <memory>
++
+ USING_NCBI_SCOPE;
+ USING_SCOPE(EPCR_SCOPE);
+ 

Modified: trunk/packages/ncbi-epcr/trunk/debian/patches/series
===================================================================
--- trunk/packages/ncbi-epcr/trunk/debian/patches/series	2008-04-16 14:53:59 UTC (rev 1770)
+++ trunk/packages/ncbi-epcr/trunk/debian/patches/series	2008-04-16 16:27:11 UTC (rev 1771)
@@ -1 +1,2 @@
 10_assert.patch
+10_gcc4.3.patch