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
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
|
<meta charset="utf-8">
<script src="./scripts/d3.v4.min.js"></script>
<script src="./scripts/create_table.js"></script>
<?php
//Going to modify this so it just writes the uploaded data to a file.
//Standardization and determining other factors will be performed in
// a Matlab/Octave script.
//<link rel="stylesheet" href="./scripts/table.css" type="text/css">
include("header_new.inc");
include("header_batchsearch.inc");
include("runtime_check.php");
include("input_validate.php");
$searchID="";
$UploadValue="NO";
$TextFile=$HTTP_POST_FILES["MyFile"]["name"];
/////////////Generate a random key/////////////////////
$alphas=array();
$alphas = array_merge(range('A', 'Z'), range('a', 'z'));
$al1=rand(0,51);
$al2=rand(0,51);
$al3=rand(0,51);
$alpha="$alphas[$al1]"."$alphas[$al2]"."$alphas[$al3]";
$keyval=$alpha;
if($_POST["My_key"]!="")
$keyval=$_POST["My_key"];
$keyval=valid_keyval($keyval);
$sid=$keyval."continuous_input";
//$dir="./data/";
$dir="/tmp/bnw/";
$input_table_file="./data/".$keyval."input_table.txt";
$TextinFile=$dir.$sid."_orig.txt";
if(isset($HTTP_POST_VARS["searchkey"]))
{
$searchID=$HTTP_POST_VARS["searchkey"];
}
if($searchID=="")
{
?>
<!-- Site navigation menu -->
<ul class="navbar2">
<li><a href="sample_input.php" target="_blank">View sample input file</a>
<li><a href="help.php#file_format" target="_blank">Data formatting guidelines</a>
<li><a href="about_this_page.php#file_upload" target="_blank">About this page</a>
<li><a href="help.php" target="_blank">Help</a>
<li><a href="home.php">Home</a>
</ul>
<?php
}
if(isset($HTTP_POST_VARS["MyUpload"]))
{
$UploadValue=$HTTP_POST_VARS["MyUpload"];
if ($UploadValue=="YES")
{
if($TextFile!="")
{
// $TextFile = valid_input($TextFile);
$sta=move_uploaded_file($HTTP_POST_FILES['MyFile']['tmp_name'],$TextinFile);
if(!$sta)
{
echo "<script type='text/javascript'> window.alert ('Sorry, error uploading $TextFile.')</script>";
flush();
exit();
}
else
{
$searchID=file_get_contents("$TextinFile");
//unlink($TextinFile);
}
}
else
{
echo "<script type='text/javascript'> window.alert ('Sorry, please select upload file.')</script>";
}
}
}
?>
<div id="outernew">
<h3>Upload data file for structure learning search:</h3>
<br>
<FORM name="key_search" id="in_form" enctype="multipart/form-data" ACTION="bn_file_load_gom.php" METHOD=POST>
<INPUT style="background-color:#FFFFFF;" type="file" name="MyFile" id="MyFile_id" class="inputfile" onchange="upload_submit()" >
<label for="MyFile_id">Choose a file. . .</label>
<INPUT TYPE="hidden" NAME="My_key" value=<?php print($keyval) ?> >
<INPUT TYPE="hidden" name="MyUpload" value="NO">
<textarea name="searchkey" style="display:none;"><?PHP print($searchID)?> </textarea>
<br>
<br>
<br>
<h3>Or load one of the example data sets below:</h3><br>
<INPUT TYPE="submit" class=button2 value=" Load example data of immune responses to infection with Chlamydia psittaci " onclick="return demochl();">
<INPUT TYPE="hidden" NAME="My_key" value=<?php print($keyval) ?> >
<br>
<INPUT TYPE="submit" class=button2 value=" Load example data of a synthetic genetic network with 2 genotypes and 6 traits " onclick="return demo8nodes();">
<INPUT TYPE="hidden" NAME="My_key" value=<?php print($keyval) ?>>
<br>
<INPUT TYPE="submit" class=button2 value=" Load example data of immune-related gene in the spleens of BXD mice " onclick="return demospnl();">
<INPUT TYPE="hidden" NAME="My_key" value=<?php print($keyval) ?>>
<br>
<INPUT TYPE="submit" class=button2 value=" Load the ksl dataset from deal " onclick="return demoksl();">   
<INPUT TYPE="hidden" NAME="My_key" value=<?php print($keyval) ?> >
<br>
<INPUT TYPE="submit" class=button2 value=" Load the rat dataset from deal " onclick="return demorat();">   
<INPUT TYPE="hidden" NAME="My_key" value=<?php print($keyval) ?> >
<br>
</FORM>
</div>
<script>
function upload_submit() {
Upload();
document.getElementById("in_form").submit();
}
</script>
<?php
if($searchID!="")
{
if ($UploadValue=="NO")
{
$fpdata = fopen($dir.$keyval."continuous_input_orig.txt","w");
fwrite($fpdata,$searchID);
}
$keyval = valid_keyval($keyval);
shell_exec('./run_scripts/run_prep_input '.$keyval);
$parent_number=4;
$k_number=1;
$runtime=exe_time($keyval,$parent_number,$k_number);
?>
<ul class="navbar2">
<li><a href="about_this_page.php#file_upload" target="_blank">About this page</a>
<li><a href="help.php" target="_blank">Help</a>
<li><a href="home.php">Home</a>
</ul>
<div id="outernew_load">
<br>
<a class=button3 href="executionprogress_default.php?My_key=<?php print($keyval);?>">Perform Bayesian network modeling using default settings. Estimated runtime: <?php print($runtime);?> seconds</a>
<br>
<a class=button3 href="create_tiers_gom_part1.php?My_key=<?php print($keyval);?>">Go to structure learning settings and the BNW structural constraint interface</a>
<br>
<a class=button3 href="remove_variables.php?My_key=<?php print($keyval);?>">Remove variables from data set</a>
<br>
<br>
<p><h3>The uploaded data file has the following properties:
<br></h3>
<div class="d3_table" id="table_div1">
<script type="text/javascript">
d3.text("<?php print($input_table_file);?>", function(error, raw){
var dsv = d3.dsvFormat("\t")
var data = dsv.parse(raw)
var caption_text = data.pop();
if (error) throw error;
tabulate_caption("#table_div1",data,caption_text.Variable);
});
</script>
</div>
<br><br><br></h3>
</p>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
<br>
</div>
<?php
}
?>
</body>
</html>
|
