This is an automated email from the git hooks/post-receive script. plessy pushed a commit to branch debian/unstable in repository samtools.
commit 23e44a4110a57524a37a013e8eedf3bbc37c9541 Author: Charles Plessy <[email protected]> Date: Mon Jun 15 21:44:28 2015 +0900 Removed fix_coverage_cap.patch, obsoleted by -d option. See https://github.com/samtools/samtools/issues/284 --- debian/patches/fix_coverage_cap.patch | 13 ------------- debian/patches/series | 1 - 2 files changed, 14 deletions(-) diff --git a/debian/patches/fix_coverage_cap.patch b/debian/patches/fix_coverage_cap.patch deleted file mode 100644 index aa27e33..0000000 --- a/debian/patches/fix_coverage_cap.patch +++ /dev/null @@ -1,13 +0,0 @@ -Description: increases the coverage cap from 8.000 to 1.000.000 -Forwarded: https://github.com/samtools/samtools/issues/284 - ---- a/bam2depth.c -+++ b/bam2depth.c -@@ -154,6 +154,7 @@ - - // the core multi-pileup loop - mplp = bam_mplp_init(n, read_bam, (void**)data); // initialization -+ bam_mplp_set_maxcnt(mplp,1000000); // set maxdepth to 1M - n_plp = calloc(n, sizeof(int)); // n_plp[i] is the number of covering reads from the i-th BAM - plp = calloc(n, sizeof(bam_pileup1_t*)); // plp[i] points to the array of covering reads (internal in mplp) - while (bam_mplp_auto(mplp, &tid, &pos, n_plp, plp) > 0) { // come to the next covered position diff --git a/debian/patches/series b/debian/patches/series index 74ed30a..dda8ba0 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -1,3 +1,2 @@ -fix_coverage_cap.patch fix_segfault_with_small_ref.patch dynamic-build.patch -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/samtools.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
