[med-svn] [ncbi-vdb] 05/10: Refresh patches

[Andreas Tille]

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tille pushed a commit to branch master
in repository ncbi-vdb.

commit d2d468826a5979f836f84e3202df971dc17bf888
Author: Andreas Tille <tille at debian.org>
Date:   Wed Jul 20 16:57:31 2016 +0200

    Refresh patches
---
 debian/patches/debug_configure.patch  | 2 +-
 debian/patches/find_hdf5_serial.patch | 2 +-
 debian/patches/find_ngs-sdk.patch     | 6 +++---
 3 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/debian/patches/debug_configure.patch b/debian/patches/debug_configure.patch
index 15986ef..d6d2f34 100644
--- a/debian/patches/debug_configure.patch
+++ b/debian/patches/debug_configure.patch
@@ -5,7 +5,7 @@ Description: Force debugging output (--with-debug in d/rules is ignored
 
 --- a/setup/konfigure.perl
 +++ b/setup/konfigure.perl
-@@ -426,6 +426,7 @@ if ($TOOLS =~ /gcc$/ && check_no_array_b
+@@ -435,6 +435,7 @@ if ($TOOLS =~ /gcc$/) {
  
  my @dependencies;
  
diff --git a/debian/patches/find_hdf5_serial.patch b/debian/patches/find_hdf5_serial.patch
index e569f26..9fe7178 100644
--- a/debian/patches/find_hdf5_serial.patch
+++ b/debian/patches/find_hdf5_serial.patch
@@ -6,7 +6,7 @@ Description: use hdf5 serial
 
 --- a/setup/konfigure.perl
 +++ b/setup/konfigure.perl
-@@ -1443,8 +1443,8 @@ sub check_compiler {
+@@ -1485,8 +1485,8 @@ sub check_compiler {
              $flags = $n;
              $log = '                      int main() {                     }\n'
          } elsif ($n eq 'hdf5') {
diff --git a/debian/patches/find_ngs-sdk.patch b/debian/patches/find_ngs-sdk.patch
index 3b5a2e7..0fb6ac3 100644
--- a/debian/patches/find_ngs-sdk.patch
+++ b/debian/patches/find_ngs-sdk.patch
@@ -4,7 +4,7 @@ Description: Enable finding ngs-sdk
 
 --- a/setup/konfigure.perl
 +++ b/setup/konfigure.perl
-@@ -1285,7 +1285,9 @@ sub find_in_dir {
+@@ -1310,7 +1310,9 @@ sub find_in_dir {
          print "\tlibraries... " unless ($AUTORUN);
          if ($lib) {
              my $builddir = File::Spec->catdir($dir, $OS, $TOOLS, $ARCH, $BUILD);
@@ -15,7 +15,7 @@ Description: Enable finding ngs-sdk
              my $ilibdir = File::Spec->catdir($builddir, 'ilib');
              my $f = File::Spec->catdir($libdir, $lib);
              print "\n\t\tchecking $f\n\t" if ($OPT{'debug'});
-@@ -1366,8 +1368,8 @@ sub find_in_dir {
+@@ -1391,8 +1393,8 @@ sub find_in_dir {
          }
      }
      if ($jar) {
@@ -28,7 +28,7 @@ Description: Enable finding ngs-sdk
              $found_lib = $try;
 --- a/setup/package.prl
 +++ b/setup/package.prl
-@@ -31,8 +31,8 @@ sub REQ { ( { name    => 'ngs-sdk',
+@@ -30,8 +30,8 @@ sub REQ { ( { name    => 'ngs-sdk',
                option  => 'with-ngs-java-prefix',
                origin  => 'I',
                type    => 'JO',

-- 
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