[med-svn] [sra-sdk] 01/01: proper hdf5 linking, hdf5 also seems to need libsz (https://github.com/PacificBiosciences/blasr/issues/4)
Andreas Tille
tille at debian.org
Fri Jul 22 20:49:24 UTC 2016
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commit 62dbed5c5a603e4aa562553df7c3196fda21fde2
Author: Andreas Tille <tille at debian.org>
Date: Fri Jul 22 22:48:17 2016 +0200
proper hdf5 linking, hdf5 also seems to need libsz (https://github.com/PacificBiosciences/blasr/issues/4)
---
debian/control | 1 +
debian/patches/find_hdf5_serial.patch | 11 +++++++++++
debian/patches/link_debian_packaged_libz.patch | 2 +-
3 files changed, 13 insertions(+), 1 deletion(-)
diff --git a/debian/control b/debian/control
index b0471a0..2ad19ed 100644
--- a/debian/control
+++ b/debian/control
@@ -9,6 +9,7 @@ Build-Depends: debhelper (>= 9),
zlib1g-dev,
libxml2-dev,
libhdf5-dev,
+ libaec-dev,
libmagic-dev,
libfuse-dev,
libngs-sdk-dev (>= 1.2.4),
diff --git a/debian/patches/find_hdf5_serial.patch b/debian/patches/find_hdf5_serial.patch
index d9f1c35..dd39662 100644
--- a/debian/patches/find_hdf5_serial.patch
+++ b/debian/patches/find_hdf5_serial.patch
@@ -9,3 +9,14 @@
} elsif ($n eq 'fuse') {
$flags = '-D_FILE_OFFSET_BITS=64';
$library = '-lfuse';
+--- a/tools/pacbio-load/Makefile
++++ b/tools/pacbio-load/Makefile
+@@ -105,7 +105,7 @@ PACBIO_LOAD_LIB = \
+ -stk-version \
+ -skdf5 \
+ -sload \
+- -shdf5 \
++ -shdf5_serial \
+ -sncbi-wvdb \
+ -sm \
+
diff --git a/debian/patches/link_debian_packaged_libz.patch b/debian/patches/link_debian_packaged_libz.patch
index 95e6a6b..88f2d41 100644
--- a/debian/patches/link_debian_packaged_libz.patch
+++ b/debian/patches/link_debian_packaged_libz.patch
@@ -10,7 +10,7 @@ Description: Since libncbi-vdb is dynamically linked against zlib and libbz2
fi
+echo "+++++++++++++++++++++++++ adding zlib +++++++++++++++++++++++++++++++++++++++"
-+CMD="$CMD -lz -lbz2"
++CMD="$CMD -lz -lbz2 -lsz"
+
# produce shared library
echo $CMD
--
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