mrcFETnormalizeBySD - Revision history

Kinoshita: Created page with "'''mrcFETnormalizeBySD''' is Eos's Command. == List of option == === Main option ===

Option Essential/Optional
2014-07-15T06:40:21Z

Created page with "'''mrcFETnormalizeBySD''' is Eos's Command. == List of option == === Main option === <table border="1"> <tr> <th>Option</th> <th>Essential/Optional</t..."

New page
'''mrcFETnormalizeBySD''' is [[Eos]]'s [[Command]].

== List of option ==
=== Main option ===
<table border="1">
<tr>
<th>Option</th>
<th>Essential/Optional</th>
<th>Description</th>
<th>Default</th>
</tr>
<tr>
<td>-i</td>
<td>Essential</td>
<td>Input: [[ASCII]](file list)</td>
<td>NULL</td>
</tr>
<tr>
<td>-is</td>
<td>Optional</td>
<td>Input: (for SDcalc) (file list)</td>
<td>NULL</td>
</tr>
<tr>
<td>-o</td>
<td>Optional</td>
<td>Output: [[mrcImage]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-rSD</td>
<td>Optional</td>
<td>Reading FETSDfile: [[mrcImage]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-wSD</td>
<td>Optional</td>
<td>Writing FETSDfile: [[mrcImage]]</td>
<td>NULL</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>
</table>

<pre>
-is :[inputsample] is FileList for SDcalculation.
use when the inputFileList is large
-rSD : to use SDdata(without calculate) mrc format
-wSD : write out the SDdata as mrc format
this file can be used next normalize with "-rSD"command.
-o : save all normalized data into one mrcImage.
do not use when the inputFileList is large
</pre>
<br>

=== -m details ===
<table border="1">
<tr>
<th>Value</th>
<th>Description</th>
</tr>
<tr>
<td>0</td>
<td></td>
</tr>
</table>
<br>

===-i format===
<pre>
FET file1
FET file2
.
.

</pre>
<br>

===-wSD format===
<div>The output of [[mrcImage]] in the following format:</div>
<pre>
average of width average of skewness average of kurtosis
SD of width SD of skewness SD of kurtosis
</pre>
<br>

== Execution example ==
=== Input file ===
<div>-i data</div>
<pre>
Input-1VOM-2D-FET.radon
Input-1VOM-Rot-2D-FET.radon
Input-1VOM-Rot3-2D-FET.radon

</pre>
<br>

<div>Data for [[:Media:Input-1VOM-2D-FET.radon|Input-1VOM-2D-FET.radon]] file by [[mrcImageMakeDump]].</div>
<pre>
0.0533889 0.309261 2.42345
0.0535469 0.316717 2.42278
0.0537852 0.328374 2.42103
0.054231 0.323276 2.40269
0.0542998 0.329251 2.40747

...

0.0524661 -0.297861 2.44797
0.0529934 -0.293378 2.42465
0.0531624 -0.301725 2.42459
0.0533889 -0.309261 2.42345
0.0535469 -0.316717 2.42278

...

0.052111 0.276049 2.44385
0.0523056 0.288111 2.44664
0.0524661 0.297861 2.44797
0.0529934 0.293378 2.42465
0.0531625 0.301725 2.42459
</pre>
<br>

<div>Data for [[:Media:Input-1VOM-Rot-2D-FET.radon|Input-1VOM-Rot-2D-FET.radon]] by [[mrcImageMakeDump]].</div>
<pre>
0.0296636 -0.0427556 1.98361
0.0295906 -0.0384619 1.97451
0.0294273 -0.0328908 1.96459
0.0293268 -0.0282282 1.95575
0.0292469 -0.0232475 1.94798

...

0.0301512 0.0511498 2.02086
0.0300728 0.0476488 2.01232
0.0300809 0.0480092 1.99483
0.0299709 0.0427557 1.98361
0.0298862 0.038462 1.97451

...

0.0304165 -0.0592456 2.04089
0.0301904 -0.0554404 2.03163
0.0299399 -0.0511498 2.02086
0.0298144 -0.0476488 2.01232
0.0297851 -0.0480091 1.99483
</pre>
<br>

<div>Data for [[:Media:Input-1VOM-Rot3-2D-FET.radon|Input-1VOM-Rot3-2D-FET.radon]] by [[mrcImageMakeDump]].</div>
<pre>
0.0553769 0.289028 2.36296
0.0546224 0.299151 2.37506
0.0541597 0.296936 2.36456
0.0537064 0.294374 2.35207
0.0532336 0.291347 2.34144

...

0.0562323 -0.273584 2.39666
0.0559653 -0.274274 2.3896
0.0554794 -0.276069 2.38097
0.0553769 -0.289028 2.36296
0.0546224 -0.299152 2.37506

...

0.0567532 0.269964 2.41348
0.0565171 0.272261 2.40528
0.0562323 0.273584 2.39666
0.0559653 0.274274 2.3896
0.0554794 0.276069 2.38097
</pre>
<br>

=== Example of options only essential ===
<div>Output</div>
<pre>
0.046142 0.011605
0.176595 0.159164
2.266799 0.193134
</pre>
<br>

===Option -o, -wSD===
<div>Data for -o file by [[mrcImageMakeDump]]</div>
<pre>
0.80458 0.624979 0.591161
-1.40951 -1.41115 -1.40819
0.604928 0.786169 0.817027
</pre>
<br>

<div>Data for -wSD file by [[mrcImageMakeDump]]</div>
<pre>
0.0116049 0.159164 0.193134
0.0461423 0.176595 2.2668
</pre>
<br>