1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
|
Author: Christian Seiler <christian@iwakd.de>
Last-Update: Tue, 28 Nov 2017 22:00:48 +0100
Description: Fix hdf5 includes.
--> https://lists.debian.org/debian-mentors/2017/11/msg00227.html
--- a/gatb-core/src/gatb/tools/math/LargeInt.hpp
+++ b/gatb-core/src/gatb/tools/math/LargeInt.hpp
@@ -35,7 +35,7 @@
#include <stdint.h>
#include <algorithm>
#include <iostream>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
#include <gatb/system/api/Exception.hpp>
#include <gatb/system/api/config.hpp>
--- a/gatb-core/src/gatb/tools/math/NativeInt128.hpp
+++ b/gatb-core/src/gatb/tools/math/NativeInt128.hpp
@@ -33,7 +33,7 @@
/********************************************************************************/
#include <iostream>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
#include <gatb/system/api/types.hpp>
#include <gatb/tools/misc/api/Abundance.hpp>
--- a/gatb-core/src/gatb/tools/math/NativeInt16.hpp
+++ b/gatb-core/src/gatb/tools/math/NativeInt16.hpp
@@ -31,7 +31,7 @@
#include <iostream>
#include <gatb/system/api/types.hpp>
#include <gatb/tools/misc/api/Abundance.hpp>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/math/NativeInt32.hpp
+++ b/gatb-core/src/gatb/tools/math/NativeInt32.hpp
@@ -31,7 +31,7 @@
#include <iostream>
#include <gatb/system/api/types.hpp>
#include <gatb/tools/misc/api/Abundance.hpp>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/math/NativeInt64.hpp
+++ b/gatb-core/src/gatb/tools/math/NativeInt64.hpp
@@ -31,7 +31,7 @@
#include <iostream>
#include <gatb/system/api/types.hpp>
#include <gatb/tools/misc/api/Abundance.hpp>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
extern const unsigned char revcomp_4NT[];
extern const unsigned char comp_NT [];
--- a/gatb-core/src/gatb/tools/math/NativeInt8.hpp
+++ b/gatb-core/src/gatb/tools/math/NativeInt8.hpp
@@ -31,7 +31,7 @@
#include <iostream>
#include <gatb/system/api/types.hpp>
#include <gatb/tools/misc/api/Abundance.hpp>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/misc/api/Abundance.hpp
+++ b/gatb-core/src/gatb/tools/misc/api/Abundance.hpp
@@ -31,7 +31,7 @@
/********************************************************************************/
#include <sys/types.h>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/misc/api/IHistogram.hpp
+++ b/gatb-core/src/gatb/tools/misc/api/IHistogram.hpp
@@ -28,7 +28,7 @@
#include <gatb/system/api/ISmartPointer.hpp>
#include <gatb/tools/storage/impl/Storage.hpp>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5.hpp
+++ b/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5.hpp
@@ -40,7 +40,7 @@
#include <string>
#include <vector>
#include <stdarg.h>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp
+++ b/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp
@@ -40,7 +40,7 @@
#include <string>
#include <vector>
#include <stdarg.h>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
/********************************************************************************/
namespace gatb {
--- a/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp
+++ b/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp
@@ -33,7 +33,7 @@
#include <gatb/tools/storage/impl/CollectionHDF5.hpp>
#include <gatb/tools/storage/impl/CollectionHDF5Patch.hpp>
#include <gatb/system/impl/System.hpp>
-#include <hdf5/hdf5.h>
+#include <hdf5/serial/hdf5.h>
#include <sstream>
/********************************************************************************/
|
