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
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
|
// Copyright (c) 2004-2019 greg Landrum and Rational Discovery LLC
//
// @@ All Rights Reserved @@
// This file is part of the RDKit.
// The contents are covered by the terms of the BSD license
// which is included in the file license.txt, found at the root
// of the RDKit source tree.
//
#include <RDBoost/python.h>
#include <iostream>
#include <fstream>
#include <RDBoost/Wrap.h>
#include <RDBoost/python_streambuf.h>
#include <RDGeneral/versions.h>
#include <RDGeneral/Invariant.h>
#include <cstdlib>
#include <RDGeneral/RDLog.h>
#if 0
#include <boost/log/functions.hpp>
#if defined(BOOST_HAS_THREADS)
#include <boost/log/extra/functions_ts.hpp>
#endif
#endif
namespace python = boost::python;
namespace logging = boost::logging;
std::string _version() { return "$Id$"; }
void EnableLog(std::string spec) { logging::enable_logs(spec); }
void DisableLog(std::string spec) { logging::disable_logs(spec); }
std::string LogStatus() { return logging::log_status(); }
void AttachFileToLog(std::string spec, std::string filename, int delay = 100) {
(void)spec;
(void)filename;
(void)delay;
#if 0
#if defined(BOOST_HAS_THREADS)
logging::manipulate_logs(spec)
.add_appender(logging::ts_appender(logging::write_to_file(filename),
delay));
#else
logging::manipulate_logs(spec)
.add_appender(logging::write_to_file(filename));
#endif
#endif
}
void LogMessage(std::string spec, std::string msg) {
#if 0
logging::logger theLog(spec);
if(theLog.is_enabled(logging::level::default_)){
*(theLog.stream().stream()) << msg;
}
#else
// FIX: get this more general
std::shared_ptr<boost::logging::rdLogger> dest = nullptr;
if (spec == "rdApp.error") {
dest = rdErrorLog;
} else if (spec == "rdApp.warning") {
dest = rdWarningLog;
} else if (spec == "rdApp.info") {
dest = rdInfoLog;
} else if (spec == "rdApp.debug") {
dest = rdDebugLog;
} else {
dest = nullptr;
}
if (dest) {
BOOST_LOG(dest) << msg;
}
#endif
}
namespace {
struct python_streambuf_wrapper {
typedef boost_adaptbx::python::streambuf wt;
static void wrap() {
using namespace boost::python;
class_<wt, boost::noncopyable>("streambuf", no_init)
.def(init<object&, std::size_t>(
(arg("python_file_obj"), arg("buffer_size") = 0),
"documentation")[with_custodian_and_ward_postcall<0, 2>()]);
}
};
struct python_ostream_wrapper {
typedef boost_adaptbx::python::ostream wt;
static void wrap() {
using namespace boost::python;
class_<std::ostream, boost::noncopyable>("std_ostream", no_init);
class_<wt, boost::noncopyable, bases<std::ostream>>("ostream", no_init)
.def(init<object&, std::size_t>(
(arg("python_file_obj"), arg("buffer_size") = 0)));
}
};
void seedRNG(unsigned int seed) { std::srand(seed); }
} // namespace
BOOST_PYTHON_MODULE(rdBase) {
python::scope().attr("__doc__") =
"Module containing basic definitions for wrapped C++ code\n"
"\n";
RDLog::InitLogs();
RegisterVectorConverter<int>();
RegisterVectorConverter<unsigned>();
RegisterVectorConverter<double>();
RegisterVectorConverter<std::string>(1);
RegisterVectorConverter<std::vector<int>>();
RegisterVectorConverter<std::vector<unsigned>>();
RegisterVectorConverter<std::vector<double>>();
RegisterListConverter<int>();
RegisterListConverter<std::vector<int>>();
python::register_exception_translator<IndexErrorException>(
&translate_index_error);
python::register_exception_translator<ValueErrorException>(
&translate_value_error);
python::register_exception_translator<KeyErrorException>(
&translate_key_error);
#if INVARIANT_EXCEPTION_METHOD
python::register_exception_translator<Invar::Invariant>(
&translate_invariant_error);
#endif
python::def("_version", _version,
"Deprecated, use the constant rdkitVersion instead");
python::scope().attr("rdkitVersion") = RDKit::rdkitVersion;
python::scope().attr("boostVersion") = RDKit::boostVersion;
python::scope().attr("rdkitBuild") = RDKit::rdkitBuild;
python::def("EnableLog", EnableLog);
python::def("DisableLog", DisableLog);
python::def("LogStatus", LogStatus);
python::def("AttachFileToLog", AttachFileToLog,
"Causes the log to write to a file",
(python::arg("spec"), python::arg("filename"),
python::arg("delay") = 100));
python::def("LogMessage", LogMessage);
python::def("SeedRandomNumberGenerator", seedRNG,
"Provides a seed to the standard C random number generator\n"
"This does not affect pure Python code, but is relevant to some "
"of the RDKit C++ components.",
(python::arg("seed")));
python_streambuf_wrapper::wrap();
python_ostream_wrapper::wrap();
python::class_<RDLog::BlockLogs,boost::noncopyable>(
"BlockLogs",
"Temporarily block logs from outputting while this instance is in scope.");
}
|
