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ctfFunction - Revision history
2026-05-14T10:40:09Z
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Kinoshita: Created page with "'''ctfFunction''' is Eos's Command for calclation of CTF(Contrast Transfer Function). == List of option == === Main option === <table border="1"> <div a..."
2014-08-19T02:32:58Z
<p>Created page with "'''ctfFunction''' is <a href="/Eos/index.php/Eos" title="Eos">Eos</a>'s <a href="/Eos/index.php/Command" title="Command">Command</a> for calclation of <a href="/Eos/index.php/CTF" title="CTF">CTF</a>(<a href="/Eos/index.php?title=Contrast_Transfer_Function&action=edit&redlink=1" class="new" title="Contrast Transfer Function (page does not exist)">Contrast Transfer Function</a>). == List of option == === Main option === <table border="1"> <div a..."</p>
<p><b>New page</b></p><div>'''ctfFunction''' is [[Eos]]'s [[Command]] for calclation of [[CTF]]([[Contrast Transfer Function]]).<br />
<br />
== List of option ==<br />
=== Main option ===<br />
<table border="1"> <br />
<div align="left"> <br />
<tr> <br />
<th>Option</th> <br />
<th>Essential/Optional</th> <br />
<th>Description</th> <br />
<th>Default</th> <br />
</tr> <br />
<tr> <br />
<td>-o</td> <br />
<td>Optional</td> <br />
<td>Output: [[ASCII]]</td> <br />
<td>stdout (Standard output by default)</td> <br />
</tr> <br />
<tr> <br />
<td>-Rmax</td> <br />
<td>Optional</td> <br />
<td>max Spatial frequency[/A]</td> <br />
<td>0.1 (1/10A=1/1nm)</td> <br />
</tr><br />
<tr> <br />
<td>-dR</td> <br />
<td>Optional</td> <br />
<td>delta Spatial frequency[/A]</td> <br />
<td>0.0001 (1/10000A=1/100nm)</td> <br />
</tr> <br />
<tr> <br />
<td>-kV</td> <br />
<td>Optional</td> <br />
<td>[[Acceleration voltage]][kV]</td> <br />
<td>200</td> <br />
</tr> <br />
<tr> <br />
<td>-Cs</td> <br />
<td>Optional</td> <br />
<td>[[Spherical aberration coefficient]][mm]</td> <br />
<td>2.1</td> <br />
</tr> <br />
<tr> <br />
<td>-df</td> <br />
<td>Essential</td> <br />
<td>Defocus: [A]:under(+)</td> <br />
<td>27000</td> <br />
</tr> <br />
<tr> <br />
<td>-A</td> <br />
<td>Optional</td> <br />
<td>AmplitudeContrast/PhaseContrast</td> <br />
<td>0.0</td> <br />
</tr> <br />
<tr> <br />
<td>-Ain</td> <br />
<td>Optional</td> <br />
<td>[[Illumination Aperture]][mrad]</td> <br />
<td>0.02</td> <br />
</tr> <br />
<tr> <br />
<td>-ctfMode</td> <br />
<td>Optional</td> <br />
<td>CTFMode</td> <br />
<td>32</td> <br />
</tr> <br />
<tr> <br />
<td>-pvm</td> <br />
<td>Optional</td> <br />
<td>PVM: MultiProcessor</td> <br />
<td>0</td> <br />
</tr> <br />
<tr> <br />
<td>-pvmList</td> <br />
<td>Optional</td> <br />
<td>PVM Host List: MultiProcessor</td> <br />
<td>stdin</td> <br />
</tr> <br />
<tr> <br />
<td>-c</td> <br />
<td>Optional</td> <br />
<td>ConfigurationFile</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-m</td> <br />
<td>Optional</td> <br />
<td>Mode</td> <br />
<td>0</td> <br />
</tr> <br />
<tr> <br />
<td>-h</td> <br />
<td>Optional</td> <br />
<td>Help</td> <br />
<td> </td> <br />
</tr> <br />
</div> <br />
</table> <br />
<br />
=== -m details ===<br />
<table border="1"> <br />
<div align="left"> <br />
<tr> <br />
<th>Value</th> <br />
<th>Description</th> <br />
</tr> <br />
<tr> <br />
<td>0</td> <br />
<td>Phase CTF</td> <br />
</tr> <br />
<tr> <br />
<td>1</td> <br />
<td>PhaseCTF + ratio*AmpCTF </td> <br />
</tr> <br />
<tr> <br />
<td>32</td> <br />
<td>Envelope From A illumination*()</td> <br />
</tr> <br />
</div> <br />
</table><br />
<br />
<br />
== Execution example ==<br />
=== Case: Options only essential ===<br />
====Case: df=27000====<br />
<pre><br />
0.000000e+00 -0.000000e+00<br />
1.000000e-04 -2.126508e-05<br />
2.000000e-04 -8.506032e-05<br />
3.000000e-04 -1.913857e-04<br />
4.000000e-04 -3.402411e-04<br />
5.000000e-04 -5.316265e-04<br />
<br />
...<br />
<br />
2.689996e-02 -9.964818e-01<br />
2.699996e-02 -9.967632e-01<br />
2.709996e-02 -9.969139e-01<br />
2.719996e-02 -9.969327e-01<br />
2.729996e-02 -9.968179e-01<br />
2.739996e-02 -9.965683e-01<br />
2.749996e-02 -9.961822e-01<br />
<br />
...<br />
<br />
4.680022e-02 9.893415e-01<br />
4.690022e-02 9.902362e-01<br />
4.700022e-02 9.907392e-01<br />
4.710022e-02 9.908478e-01<br />
4.720023e-02 9.905595e-01<br />
4.730023e-02 9.898719e-01<br />
4.740023e-02 9.887827e-01<br />
<br />
...<br />
<br />
6.050045e-02 -9.820312e-01<br />
6.060045e-02 -9.836121e-01<br />
6.070045e-02 -9.845440e-01<br />
6.080046e-02 -9.848229e-01<br />
6.090046e-02 -9.844457e-01<br />
6.100046e-02 -9.834093e-01<br />
6.110046e-02 -9.817115e-01<br />
<br />
...<br />
<br />
7.160064e-02 9.734057e-01<br />
7.170064e-02 9.760870e-01<br />
7.180064e-02 9.778683e-01<br />
7.190064e-02 9.787440e-01<br />
7.200065e-02 9.787095e-01<br />
7.210065e-02 9.777614e-01<br />
7.220065e-02 9.758970e-01<br />
<br />
...<br />
<br />
8.130080e-02 -9.678397e-01<br />
8.140080e-02 -9.706841e-01<br />
8.150081e-02 -9.723749e-01<br />
8.160081e-02 -9.729062e-01<br />
8.170081e-02 -9.722735e-01<br />
8.180081e-02 -9.704731e-01<br />
8.190081e-02 -9.675035e-01<br />
<br />
...<br />
<br />
8.990095e-02 9.596011e-01<br />
9.000095e-02 9.634601e-01<br />
9.010095e-02 9.659220e-01<br />
9.020095e-02 9.669784e-01<br />
9.030095e-02 9.666234e-01<br />
9.040096e-02 9.648532e-01<br />
9.050096e-02 9.616656e-01<br />
<br />
...<br />
<br />
9.780108e-02 -9.535865e-01<br />
9.790108e-02 -9.577640e-01<br />
9.800109e-02 -9.602997e-01<br />
9.810109e-02 -9.611844e-01<br />
9.820109e-02 -9.604117e-01<br />
9.830109e-02 -9.579786e-01<br />
9.840109e-02 -9.538838e-01<br />
<br />
...<br />
<br />
9.940111e-02 -8.235375e-01<br />
9.950111e-02 -8.019667e-01<br />
9.960111e-02 -7.789568e-01<br />
9.970111e-02 -7.545429e-01<br />
9.980112e-02 -7.287651e-01<br />
9.990112e-02 -7.016634e-01<br />
</pre><br />
<br />
<br />
=== Option -Rmax===<br />
====Case: Rmax=0.0275, df=27000====<br />
<pre><br />
0.000000e+00 -0.000000e+00<br />
1.000000e-04 -2.126508e-05<br />
2.000000e-04 -8.506032e-05<br />
3.000000e-04 -1.913857e-04<br />
4.000000e-04 -3.402411e-04<br />
5.000000e-04 -5.316265e-04<br />
<br />
...<br />
<br />
2.699996e-02 -9.967632e-01<br />
2.709996e-02 -9.969139e-01<br />
2.719996e-02 -9.969327e-01<br />
2.729996e-02 -9.968179e-01<br />
2.739996e-02 -9.965683e-01<br />
2.749996e-02 -9.961822e-01<br />
</pre><br />
<br />
<br />
=== Option -dR===<br />
====Case: dR=0.0002, df=27000====<br />
<pre><br />
0.000000e+00 -0.000000e+00<br />
2.000000e-04 -8.506032e-05<br />
4.000000e-04 -3.402411e-04<br />
6.000000e-04 -7.655416e-04<br />
8.000000e-04 -1.360961e-03<br />
9.999999e-04 -2.126497e-03<br />
<br />
...<br />
<br />
9.880053e-02 -9.210505e-01<br />
9.900053e-02 -8.948516e-01<br />
9.920053e-02 -8.623229e-01<br />
9.940054e-02 -8.236561e-01<br />
9.960054e-02 -7.790933e-01<br />
9.980054e-02 -7.289156e-01<br />
</pre><br />
<br />
<br />
=== Option -kV===<br />
====Case: kV=1000, df=27000====<br />
<pre><br />
0.000000e+00 -0.000000e+00<br />
1.000000e-04 -7.392701e-06<br />
2.000000e-04 -2.957080e-05<br />
3.000000e-04 -6.653428e-05<br />
4.000000e-04 -1.182831e-04<br />
5.000000e-04 -1.848173e-04<br />
<br />
...<br />
<br />
4.570020e-02 -9.910088e-01<br />
4.580020e-02 -9.911290e-01<br />
4.590020e-02 -9.912040e-01<br />
4.600020e-02 -9.912333e-01<br />
4.610021e-02 -9.912170e-01<br />
4.620021e-02 -9.911544e-01<br />
4.630021e-02 -9.910454e-01<br />
<br />
...<br />
<br />
7.950077e-02 9.733074e-01<br />
7.960077e-02 9.736431e-01<br />
7.970078e-02 9.738442e-01<br />
7.980078e-02 9.739104e-01<br />
7.990078e-02 9.738411e-01<br />
8.000078e-02 9.736357e-01<br />
8.010078e-02 9.732941e-01<br />
<br />
...<br />
<br />
9.940111e-02 -8.174452e-01<br />
9.950111e-02 -8.246824e-01<br />
9.960111e-02 -8.317468e-01<br />
9.970111e-02 -8.386369e-01<br />
9.980112e-02 -8.453506e-01<br />
9.990112e-02 -8.518866e-01<br />
</pre><br />
<br />
<br />
=== Option -Cs===<br />
====Case: Cs=1.7, df=27000====<br />
<pre><br />
0.000000e+00 -0.000000e+00<br />
1.000000e-04 -2.126508e-05<br />
2.000000e-04 -8.506032e-05<br />
3.000000e-04 -1.913857e-04<br />
4.000000e-04 -3.402411e-04<br />
5.000000e-04 -5.316265e-04<br />
<br />
...<br />
<br />
2.689996e-02 -9.964831e-01<br />
2.699996e-02 -9.967638e-01<br />
2.709996e-02 -9.969140e-01<br />
2.719996e-02 -9.969321e-01<br />
2.729996e-02 -9.968168e-01<br />
2.739996e-02 -9.965665e-01<br />
2.749996e-02 -9.961797e-01<br />
<br />
...<br />
<br />
4.680022e-02 9.893647e-01<br />
4.690022e-02 9.902502e-01<br />
4.700022e-02 9.907437e-01<br />
4.710022e-02 9.908427e-01<br />
4.720023e-02 9.905445e-01<br />
4.730023e-02 9.898469e-01<br />
4.740023e-02 9.887477e-01<br />
<br />
...<br />
<br />
9.940111e-02 -8.186659e-01<br />
9.950111e-02 -7.967464e-01<br />
9.960111e-02 -7.733940e-01<br />
9.970111e-02 -7.486448e-01<br />
9.980112e-02 -7.225391e-01<br />
9.990112e-02 -6.951182e-01<br />
</pre></div>
Kinoshita