[med-svn] samtools 02/06: Update patches.

[Andreas Tille]

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tille pushed a commit to branch master
in repository samtools.

commit 4eb68d19c4416e6130a205efc5c2ff58708e9031
Author: Andreas Tille <tille at debian.org>
Date:   Mon Dec 11 15:27:22 2017 +0100

    Update patches.
---
 debian/patches/mayhem.patch | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/debian/patches/mayhem.patch b/debian/patches/mayhem.patch
index 537561a..8b0ed8a 100644
--- a/debian/patches/mayhem.patch
+++ b/debian/patches/mayhem.patch
@@ -7,7 +7,7 @@ Description: Fix Mayhem issues caused by unlimited reads of gz input
 
 --- a/misc/maq2sam.c
 +++ b/misc/maq2sam.c
-@@ -100,14 +100,37 @@
+@@ -99,14 +99,37 @@ maqmap_t *maqmap_read_header(gzFile fp)
          }
          assert(mm->format == MAQMAP_FORMAT_NEW);
      }
@@ -46,7 +46,7 @@ Description: Fix Mayhem issues caused by unlimited reads of gz input
      gzread(fp, &mm->n_mapped_reads, sizeof(uint64_t));
      return mm;
  }
-@@ -119,6 +142,8 @@
+@@ -118,6 +141,8 @@ void maq2tam_core(gzFile fp, const char
      int ret;
      m1 = &mm1;
      mm = maqmap_read_header(fp);
@@ -55,7 +55,7 @@ Description: Fix Mayhem issues caused by unlimited reads of gz input
      while ((ret = gzread(fp, m1, sizeof(maqmap1_t))) == sizeof(maqmap1_t)) {
          int j, flag = 0, se_mapq = m1->seq[MAX_READLEN-1];
          if (m1->flag) flag |= 1;
-@@ -193,6 +218,11 @@
+@@ -192,6 +217,11 @@ int main(int argc, char *argv[])
          return 1;
      }
      fp = strcmp(argv[1], "-")? gzopen(argv[1], "r") : gzdopen(fileno(stdin), "r");

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