Author: osallou-guest Date: 2012-03-02 10:43:54 +0000 (Fri, 02 Mar 2012) New Revision: 9852
Added: trunk/packages/bioperl/trunk/debian/patches/ trunk/packages/bioperl/trunk/debian/patches/fix_berkeleydb3_temp_file_creation trunk/packages/bioperl/trunk/debian/patches/series Modified: trunk/packages/bioperl/trunk/debian/changelog Log: add patch fix_berkeleydb3_temp_file_creation to fix 661793 Modified: trunk/packages/bioperl/trunk/debian/changelog =================================================================== --- trunk/packages/bioperl/trunk/debian/changelog 2012-03-02 05:25:32 UTC (rev 9851) +++ trunk/packages/bioperl/trunk/debian/changelog 2012-03-02 10:43:54 UTC (rev 9852) @@ -1,3 +1,12 @@ +bioperl (1.6.901-3) unstable; urgency=low + + * Team upload. + [ Olivier Sallou ] + + add patch fix_berkeleydb3_temp_file_creation (Closes: #661793). + Fixed upstream for next release. + + -- Olivier Sallou <[email protected]> Fri, 02 Mar 2012 11:10:36 +0100 + bioperl (1.6.901-2) unstable; urgency=low [ Luca Capello ] Added: trunk/packages/bioperl/trunk/debian/patches/fix_berkeleydb3_temp_file_creation =================================================================== --- trunk/packages/bioperl/trunk/debian/patches/fix_berkeleydb3_temp_file_creation (rev 0) +++ trunk/packages/bioperl/trunk/debian/patches/fix_berkeleydb3_temp_file_creation 2012-03-02 10:43:54 UTC (rev 9852) @@ -0,0 +1,17 @@ +Subject: wrong order in file creation +Description: tie operation has flags and mode in the wrong order. + Fixed upstream with commit 2b0daf196e0f2acf373c2bc8f0bf2449c36edf40. + Patch should be removed with next upstream release. +Author: Olivier Sallou <[email protected] +Last-Updated: 02/03/2012 +--- a/Bio/DB/SeqFeature/Store/berkeleydb3.pm ++++ b/Bio/DB/SeqFeature/Store/berkeleydb3.pm +@@ -497,7 +497,7 @@ + my $numeric_cmp = DB_File::BTREEINFO->new; + $numeric_cmp->{compare} = sub { $_[0] <=> $_[1] }; + $numeric_cmp->{flags} = R_DUP; +- my $s = tie %sort,'DB_File',$name,0666,O_CREAT|O_RDWR,$numeric_cmp ++ my $s = tie %sort,'DB_File',$name,O_CREAT|O_RDWR,0666,$numeric_cmp + or $self->throw("Couldn't create temporary file for sorting: $!"); + + my $index = $self->index_db('locations'); Added: trunk/packages/bioperl/trunk/debian/patches/series =================================================================== --- trunk/packages/bioperl/trunk/debian/patches/series (rev 0) +++ trunk/packages/bioperl/trunk/debian/patches/series 2012-03-02 10:43:54 UTC (rev 9852) @@ -0,0 +1 @@ +fix_berkeleydb3_temp_file_creation _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
