mrcImageInfo - Revision history

Kinoshita: Created page with "'''mrcImageInfo''' is Eos's Command that displays image information of mrcImage. == List of option == === Main option ===

2014-07-25T03:02:43Z

Created page with "'''mrcImageInfo''' is Eos's Command that displays image information of mrcImage. == List of option == === Main option === <table border="1"> <div align="lef..."

New page
'''mrcImageInfo''' is [[Eos]]'s [[Command]] that displays image information of [[mrcImage]].

== List of option ==
=== Main option ===
<table border="1">
<div align="left">
<tr>
<th>Option</th>
<th>Essential/Optional</th>
<th>Description</th>
<th>Default</th>
</tr>
<tr>
<td>-i</td>
<td>Essential</td>
<td>Input: [[mrcImage]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-o</td>
<td>Optional</td>
<td>Output: [[ASCII]]</td>
<td>stdout(The standard output by default）</td>
</tr>
<tr>
<td>-I</td>
<td>Optional</td>
<td>When it set,<br>
it outputs the general statistics of image.</td>
<td></td>
</tr>
<tr>
<td>-X</td>
<td>Optional</td>
<td>Output: x=X (vaule): [[ASCII]]</td>
<td>0.0</td>
</tr>
<tr>
<td>-Y</td>
<td>Optional</td>
<td>Output: y=Y (vaule): [[ASCII]]</td>
<td>0.0</td>
</tr>
<tr>
<td>-x</td>
<td>Optional</td>
<td>Output: x Projection: [[ASCII]]</td>
<td></td>
</tr>
<tr>
<td>-y</td>
<td>Optional</td>
<td>Output: y Projection: [[ASCII]]</td>
<td></td>
</tr>
<tr>
<td>-H</td>
<td>Optional</td>
<td>Histgram (Normalize): Number</td>
<td>256</td>
</tr>
<tr>
<td>-H2</td>
<td>Optional</td>
<td>Histgram2 (Normalize): Width</td>
<td>1</td>
</tr>
<tr>
<td>-H3</td>
<td>Optional</td>
<td>Histgram3 (Count): Number</td>
<td>256</td>
</tr>
<tr>
<td>-H4</td>
<td>Optional</td>
<td>Histgram4 (Count): Width</td>
<td>1</td>
</tr>
<tr>
<td>-H5</td>
<td>Optional</td>
<td>Histgram5 (Count: -Low, need -High): Number</td>
<td>1</td>
</tr>
<tr>
<td>-H6</td>
<td>Optional</td>
<td>Histgram6 (Count: need -Low, -High): Width</td>
<td>1</td>
</tr>
<tr>
<td>-Low</td>
<td>Optional</td>
<td>Threshold (start point of output)</td>
<td>1</td>
</tr>
<tr>
<td>-High</td>
<td>Optional</td>
<td>Threshold (end point of output)</td>
<td>1</td>
</tr>
<tr>
<td>-rmax</td>
<td>Optional</td>
<td>rmax [A]</td>
<td>250</td>
</tr>
<tr>
<td>-c</td>
<td>Optional</td>
<td>ConfigurationFile</td>
<td>NULL</td>
</tr>
<tr>
<td>-m</td>
<td>Optional</td>
<td>Mode</td>
<td>0</td>
</tr>
<tr>
<td>-h</td>
<td>Optional</td>
<td>Help</td>
<td>　</td>
</tr>
</div>
</table>
<br>

=== -m details ===
<table border="1">
<div align="left">
<tr>
<th>Value</th>
<th>Description</th>
</tr>
<tr>
<td>0</td>
<td>mean of all density</td>
</tr>
<tr>
<td>1</td>
<td>mean of sphere surface density at rmax</td>
</tr>
<tr>
<td>2</td>
<td>mean of cylinder surface density at rmax</td>
</tr>
<tr>
<td>3</td>
<td>mean of edge pixels</td>
</tr>
<tr>
<td>4</td>
<td>mean of Centre: not implemented</td>
</tr>
<tr>
<td>5</td>
<td>mean of Sparse: not implemented</td>
</tr>
<tr>
<td>6</td>
<td>mean of 2DEdge: not implemented</td>
</tr>
<tr>
<td>7</td>
<td>RMS of all pixels</td>
</tr>
</div>
</table>
<br>

== Execution example ==
=== Input file's image ===
[[File:B120-2-mrcImageInfo.png]]
<br>

<div>Using for m=1, m=2</div>
[[File:Input(3D)-mrcImageInfo.png]]
<br>

=== Example of options only essential ===
<div>if no option, no output. </div>
<br>

===オプション -I===
<pre>
Min: 0 (41, 10, 0) Min value (its coordinate)
Max: 255 (42, 36, 0) Max value (its coordinate)
Mean: 111.211 Mean
SD: 32.7239 Standard deviation
SE: 0.409049 Standard error
Sum: 711751
</pre>
<br>

=== Option -X===
====Case: X=40====
<pre>
0 117
1 118
2 128
3 100
4 133
5 70

...

74 118
75 73
76 83
77 97
78 79
79 96
</pre>
<br>

=== Option -Y===
====Case: Y=40====
<pre>
0 105
1 130
2 76
3 98
4 113
5 86

...

74 131
75 111
76 97
77 79
78 71
79 128
</pre>
<br>

=== Option -x===
<pre>
0 230
1 2
2 23
3 157
4 107
5 108

...

74 197
75 57
76 118
77 157
78 49
79 102
</pre>
<br>

=== Option -y===
<pre>
0 66
1 116
2 223
3 135
4 185
5 231

...

74 154
75 158
76 177
77 189
78 244
79 5
</pre>
<br>

=== Option -H===
====Case: H=256====
<pre>
0 0.00990099 | *
1 0 |*
2 0 |*
3 0 |*
4 0 |*
5 0 |*

...

62 0.217822 | *
63 0.326733 | *
64 0.306931 | *
65 0.267327 | *
66 0.326733 | *
67 0.336634 | *
68 0.287129 | *
69 0.356436 | *
70 0.356436 | *
71 0.386139 | *
72 0.39604 | *
73 0.386139 | *
74 0.415842 | *
75 0.386139 | *
76 0.465347 | *
77 0.475248 | *
78 0.475248 | *
79 0.584158 | *
80 0.50495 | *

...

116 0.920792 | *
117 0.920792 | *
118 0.683168 | *
119 1 | *
120 0.782178 | *
121 0.712871 | *
122 0.623762 | *
123 0.594059 | *
124 0.653465 | *
125 0.70297 | *
126 0.70297 | *
127 0.653465 | *
128 0.613861 | *
129 0.633663 | *
130 0.485149 | *
131 0.564356 | *
132 0.514851 | *
133 0.475248 | *
134 0.405941 | *

...

250 0 |*
251 0 |*
252 0 |*
253 0 |*
254 0 |*
255 0.00990099 | *
</pre>
<br>

====Case: H=16====
<pre>
0 0.00213068 | *
17 0.00497159 | *
34 0.0326705 | *
51 0.139915 | *
68 0.40625 | *
85 0.796165 | *
102 1 | *
119 0.922585 | *
136 0.585227 | *
153 0.319602 | *
170 0.176847 | *
187 0.0852273 | *
204 0.0539773 | *
221 0.0106534 | *
238 0.0078125 | *
255 0.00142045 | *
</pre>
<br>

=== Option -H2===
====Case: H2=2====
<pre>
0 0.00540541 | *
2 0 |*
4 0 |*
6 0 |*
8 0.0108108 | *
10 0 |*

...

62 0.259459 | *
64 0.345946 | *
66 0.324324 | *
68 0.340541 | *
70 0.389189 | *
72 0.427027 | *
74 0.437838 | *
76 0.464865 | *
78 0.518919 | *
80 0.594595 | *

...

116 0.989189 | *
118 0.875676 | *
120 0.972973 | *
122 0.72973 | *
124 0.681081 | *
126 0.767568 | *
128 0.691892 | *
130 0.610811 | *
132 0.589189 | *
134 0.481081 | *

...

244 0.00540541 | *
246 0.0108108 | *
248 0.00540541 | *
250 0 |*
252 0 |*
254 0 |*
</pre>
<br>

=== Option -H3===
====Case: H3=256====
<pre>
0 1
1 0
2 0
3 0
4 0
5 0

...

125 71
126 71
127 66
128 62
129 64
130 49
131 57

...

250 0
251 0
252 0
253 0
254 0
255 1
</pre>
<br>

=== Option -H4===
====Case: H4=1====
<pre>
0 1
1 0
2 0
3 0
4 0
5 0

...

125 71
126 71
127 66
128 62
129 64
130 49
131 57

...

250 0
251 0
252 0
253 0
254 0
255 1
</pre>
<br>

=== Option -H5===
====Case: H5=16====
<pre>
1 1 | *
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
1 0 |*
</pre>
<br>

====Case: H5=16, Low=0, High=255====
<pre>
0 0.00213068 | *
17 0.00497159 | *
34 0.0326705 | *
51 0.139915 | *
68 0.40625 | *
85 0.796165 | *
102 1 | *
119 0.922585 | *
136 0.585227 | *
153 0.319602 | *
170 0.176847 | *
187 0.0852273 | *
204 0.0539773 | *
221 0.0106534 | *
238 0.0078125 | *
255 0.00142045 | *
</pre>
<br>

=== Option -H6===
====Case: H6=16====
<pre>
1 1
</pre>
<br>

====Case: H6=16, Low=0, High=255====
<pre>
0 0.00213068
16 0.00497159
32 0.0326705
48 0.139915
64 0.40625
80 0.796165
96 1
112 0.922585
128 0.585227
144 0.319602
160 0.176847
176 0.0852273
192 0.0539773
208 0.0106534
224 0.0078125
240 0.00142045
</pre>
<br>

=== Option -m===
====Case: m=1, I====
=====Case: No other settings=====
<pre>
Mean: 0.616809
SD: 0.673385
SE: 0.0013199
</pre>
<br>

=====Case: rmax=50=====
<pre>
Mean: 1.1812
SD: 0.106769
SE: 0.000209277
</pre>
<br>

====Case: m=2, I====
=====Case: No other settings=====
<pre>
Mean: -1.1766e-05
SD: 0.000598326
SE: 2.23951e-06
</pre>
<br>

=====Case: rmax=50=====
<pre>
Mean: 1.01668
SD: 0.477893
SE: 0.00178873
</pre>
<br>

====Case: m=3, I====
<pre>
Mean: 102.924
SD: 25.5864
SE: 1.43935
</pre>
<br>

====Case: m=7, I====
<pre>
RMS: 115.926
</pre>
<br>