This is an automated email from the git hooks/post-receive script. tille pushed a commit to branch master in repository fastqc.
commit fbc845aabc0757ce002395368ff2c012ec232da1 Author: Andreas Tille <[email protected]> Date: Thu Jan 14 15:11:09 2016 +0100 Path to samtools changed when switching from libsam-java to libhtsjdk-java --- debian/patches/adapt_to_htslib.patch | 25 +++++++++++++++++++++++++ debian/patches/series | 1 + 2 files changed, 26 insertions(+) diff --git a/debian/patches/adapt_to_htslib.patch b/debian/patches/adapt_to_htslib.patch new file mode 100644 index 0000000..c97c5ea --- /dev/null +++ b/debian/patches/adapt_to_htslib.patch @@ -0,0 +1,25 @@ +Author: Andreas Tille <[email protected]> +Last-Update: Thu, 14 Jan 2016 13:50:56 +0100 +Bug-Debian: https://bugs.debian.org/810843 +Description: Path to samtools changed when switching from libsam-java + to libhtsjdk-java + +--- a/uk/ac/babraham/FastQC/Sequence/BAMFile.java ++++ b/uk/ac/babraham/FastQC/Sequence/BAMFile.java +@@ -25,11 +25,11 @@ import java.io.IOException; + import java.util.Iterator; + import java.util.List; + +-import net.sf.samtools.CigarElement; +-import net.sf.samtools.CigarOperator; +-import net.sf.samtools.SAMFileReader; +-import net.sf.samtools.SAMFormatException; +-import net.sf.samtools.SAMRecord; ++import htsjdk.samtools.CigarElement; ++import htsjdk.samtools.CigarOperator; ++import htsjdk.samtools.SAMFileReader; ++import htsjdk.samtools.SAMFormatException; ++import htsjdk.samtools.SAMRecord; + + public class BAMFile implements SequenceFile { + diff --git a/debian/patches/series b/debian/patches/series index ca9e6da..0801e7d 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -2,3 +2,4 @@ build_xml.patch fastqc.patch fix-help-call.patch set_configuration_path.patch +adapt_to_htslib.patch -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/fastqc.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
