io_lib/cram_index.c | 8 8 + 0 - 0 !
io_lib/cram_io.c | 8 8 + 0 - 0 !
io_lib/files.c | 8 8 + 0 - 0 !
io_lib/srf.h | 8 8 + 0 - 0 !
progs/cram_index.c | 8 8 + 0 - 0 !
5 files changed, 40 insertions(+)

 define path_max in case it is not available
             this is needed to compile on hurd_i386

io_lib/bgzip.c | 4 4 + 0 - 0 !
1 file changed, 4 insertions(+)

 attempt to fix ftbfs on non-i386 32bit for fseeko()

io_lib/bam.c | 6 3 + 3 - 0 !
1 file changed, 3 insertions(+), 3 deletions(-)

 [patch] bug fix to scramble on systems not defining allow_uac.

(Mostly non-Intel platforms.)

tests/scram.test | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 remove bashism in test script
Bug-Debian: https://bugs.debian.org/915460

io_lib/bam.c | 52 27 + 25 - 0 !
1 file changed, 27 insertions(+), 25 deletions(-)

 [patch] big endian fix for bam reading.

Fixes Debian Bug#915450

io_lib/bam.h | 3 2 + 1 - 0 !
io_lib/cram_decode.c | 9 5 + 4 - 0 !
2 files changed, 7 insertions(+), 5 deletions(-)

 [patch] bug multi-threaded cram decode on some systems.

The bulk_cram_to_bam function allocated a large array for the BAM
objects, but did not ensure the bam structures are aligned on a word
boundary.  This gave rise to bus errors.  Fixes debian Bug#915459

io_lib/rANS_static.c | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 [patch] fix rans codec on x32 architecture.

This is 32-bit usage of a 64-bit processor.  See
https://wiki.debian.org/X32Port
Should fix the bug found here:
https://buildd.debian.org/status/fetch.php?pkg=staden-io-lib&arch=x32&ver=1.14.11-3&stamp=1543952038&raw=0

io_lib/hash_table.c | 10 5 + 5 - 0 !
1 file changed, 5 insertions(+), 5 deletions(-)

 [patch] fix hash table hash_int_keys on 32-bit platforms

The hash table has the option to declare the key pointer is the key
itself rather than the memory it points to.  It assumed however that
the key was 8 bytes long, rather than sizeof(char *).

Fixes Debian Bug#915460

configure.in | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 use serial tests

io_lib/mach-io.c | 2 1 + 1 - 0 !
io_lib/mach-io.h | 2 1 + 1 - 0 !
io_lib/seqIOABI.c | 2 1 + 1 - 0 !
io_lib/seqIOALF.c | 2 1 + 1 - 0 !
4 files changed, 4 insertions(+), 4 deletions(-)

 spelling: independant→independent