Difference between revisions of "Display2"

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(→‎Windowメニュー)
(→‎Helpメニュー)
 
(6 intermediate revisions by the same user not shown)
Line 261: Line 261:
 
ROIInfo<br></p>  
 
ROIInfo<br></p>  
 
</td>  
 
</td>  
−
<td><p align="left">Cancel the cut out space.<br>  
+
<td><p align="left">Cancel the cut out region.<br>  
−
Determine the cut out space.(MultiShape only)<br>
+
Determine the cut out region.(MultiShape only)<br>
−
Move the cut out space.(<br>  
+
Move the cut out region.<br>  
−
Resize of  the cut out space.(<br>  
+
Resize of  the cut out region.<br>  
−
Rotate the cut out space.(<br>  
+
Rotate the cut out region.<br>  
−
Delete all cut out space.((MultiShape only)<br>  
+
Delete all cut out region.(MultiShape only)<br>  
−
Delete one cut out space.(MultiShape only)<br>  
+
Delete one cut out region.(MultiShape only)<br>  
 
Zoom in<br>  
 
Zoom in<br>  
 
Zoom out<br>  
 
Zoom out<br>  
Line 277: Line 277:
  
 
====Cancle====
 
====Cancle====
−
<div>Cancel the cut out space.</div>
+
<div>Cancel the cut out region.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 288: Line 288:
  
 
====OK====
 
====OK====
−
<div>Determine the cut out space. (Before: Blue, After: Green)</div>
+
<div>Determine the cut out region. (Before: Blue, After: Green)</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 332: Line 332:
  
 
====All Delete====
 
====All Delete====
−
<div>Delete all cut out space.</div>
+
<div>Delete all cut out region.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 343: Line 343:
  
 
====Delete====
 
====Delete====
−
<div>Delete the Current cut out space.</div>
+
<div>Delete the Current cut out region.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 423: Line 423:
 
<br>
 
<br>
  
−
===Windowメニュー===
+
===Window Menu===
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 439: Line 439:
 
<br>
 
<br>
  
−
===ROIメニュー===
+
===ROI Menu===
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 454: Line 454:
 
ROIInfo<br></p>  
 
ROIInfo<br></p>  
 
</td>  
 
</td>  
−
<td><p align="left">切り出し範囲を矩形サイズにする<br>  
+
<td><p align="left">Rectangle is cut out region.<br>  
−
切り出し範囲を直線にする<br>  
+
Line is cut out region.<br>  
−
切り出し範囲をスプライン曲線にする<br>
+
Spline is cut out region.<br>
−
切り出し範囲の新規作成<br>
+
Create new cut out region.<br>
−
切り出し範囲の選択(MultiShape時のみ)<br>
+
Select a cut out region.(MultiShape only)<br>
−
ズームイン<br>
+
Zoom in<br>
−
ズームアウト<br>
+
Zoom out<br>
−
ROIfileの複数切り出し<br>
+
Cut out multiple ROI files<br>
 
<br>
 
<br>
−
ROI情報を表示<br></p>  
+
View ROI Information<br></p>  
 
</td>  
 
</td>  
 
</tr>  
 
</tr>  
Line 470: Line 470:
  
 
====Rectangle====
 
====Rectangle====
−
<div>切り出し範囲を矩形サイズにする</div>
+
<div>Rectangle is cut out region.</div>
 
[[File:Outdata1-Display2.png]]<br>
 
[[File:Outdata1-Display2.png]]<br>
 
<br>
 
<br>
  
−
<div>切り出した画像</div>
+
<div>Cut out image</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 494: Line 494:
 
<br>
 
<br>
  
−
<div>-o のログ</div>
+
<div>-o 's Log data</div>
 
<pre>
 
<pre>
 
mrcImageROI -i Input-1VOM-N-2D.mrc -o Outdata.mrc -m 2 -r 5.0 5.0 40.0 5.0 40.0 40.0 5.0 40.0
 
mrcImageROI -i Input-1VOM-N-2D.mrc -o Outdata.mrc -m 2 -r 5.0 5.0 40.0 5.0 40.0 40.0 5.0 40.0
Line 501: Line 501:
  
 
====Line====
 
====Line====
−
<div>切り出し範囲を直線にする</div>
+
<div>Line is cut out region.</div>
 
[[File:Outdata-Line-Display2.png]]<br>
 
[[File:Outdata-Line-Display2.png]]<br>
 
<br>
 
<br>
  
 
====Spline====
 
====Spline====
−
<div>切り出し範囲をスプライン曲線にする</div>
+
<div>Spline is cut out region.</div>
 
[[File:Outdata-Spline-Display2.png]]<br>
 
[[File:Outdata-Spline-Display2.png]]<br>
 
<br>
 
<br>
  
−
<div>切り出した画像</div>
+
<div>Cut out image</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 530: Line 530:
 
<br>
 
<br>
  
−
<div>-o のログ</div>
+
<div>-o 's Log data</div>
 
<pre>
 
<pre>
 
mrcImageUnbentROI -i Input-1VOM-N-2D.mrc -o Outdata.mrc -x 80 -r 9.0 12.0  74.0 12.0  37.0 26.0  62.0 39.0  41.0 73.0  23.0 72.0  10.0 65.0  19.0 53.0  6.0 34.0  8.0 14.0  
 
mrcImageUnbentROI -i Input-1VOM-N-2D.mrc -o Outdata.mrc -x 80 -r 9.0 12.0  74.0 12.0  37.0 26.0  62.0 39.0  41.0 73.0  23.0 72.0  10.0 65.0  19.0 53.0  6.0 34.0  8.0 14.0  
Line 537: Line 537:
  
 
====Create====
 
====Create====
−
<div>切り出し範囲を新規作成する</div>
+
<div>Create new cut out region.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
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====ZoomIn====
 
====ZoomIn====
−
<div>[[Display2#ZoomIn|Editメニュー]]と同様</div>
+
<div>Same as [[Display2#ZoomIn|Edit Menu]]</div>
 
<br>
 
<br>
  
 
====ZoomOut====
 
====ZoomOut====
−
<div>[[Display2#ZoomOut|Editメニュー]]と同様</div>
+
<div>Same as [[Display2#ZoomOut|Edit Menu]]</div>
 
<br>
 
<br>
  
 
====MultiROI====
 
====MultiROI====
−
<div>複数の[[ROI]]fileがOutput可能になる</div>
+
<div>It can cut out multiple [[ROI]] files</div>
 
<br>
 
<br>
  
Line 563: Line 563:
  
 
====ROIInfo====
 
====ROIInfo====
−
[[Display2#ROIInfo|Editメニュー]]と同様<br>
+
Same as [[Display2#ROIInfo|Edit Menu]]<br>
 
<br>
 
<br>
  
−
===Operationメニュー===
+
===Operation Menu===
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 572: Line 572:
 
<td><p align="left">fft2d<br></p>  
 
<td><p align="left">fft2d<br></p>  
 
</td>  
 
</td>  
−
<td><p align="left">FFT処理を行う<br></p>  
+
<td><p align="left">Perform FFT<br></p>  
 
</td>  
 
</td>  
 
</tr>  
 
</tr>  
Line 581: Line 581:
 
<br>
 
<br>
  
−
===Informationメニュー===
+
===Information Menu===
−
<div>画像上にて右クリックすることでも同様のメニューを開くことができる</div>
+
<div>When right-click on the image, open the same menu.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 597: Line 597:
 
Scale Info<br></p>  
 
Scale Info<br></p>  
 
</td>  
 
</td>  
−
<td><p align="left">密度とFrequencyのグラフを表示する<br>  
+
<td><p align="left">Display the graph about density and frequency.<br>  
 
<br>
 
<br>
 
<br>
 
<br>
Line 616: Line 616:
 
<br>
 
<br>
  
−
<div>右上のボタン(line1)を押すと、グラフのピークが表示される</div>
+
<div>When push right top button(line1), display the peak of graph.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 626: Line 626:
 
<br>
 
<br>
  
−
<div>グラフ上をドラッグすることでズームができる(連続操作可能)</div>
+
<div>When drag on the graph, zoom in. (multiple operation allow.)</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
Line 636: Line 636:
 
<br>
 
<br>
  
−
<div>グラフ上を右クリックすると、ズームを1段階戻す</div>
+
<div>When right-click, zoom out by one step.</div>
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  
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====mrcImage Info====
 
====mrcImage Info====
−
<div>[[mrcImage]]'s image情報が表示される</div>
+
<div>Display [[mrcImage]]'s image Information.</div>
 
[[File:Outdata2-Information-Display2.png]]<br>
 
[[File:Outdata2-Information-Display2.png]]<br>
−
<div>[[Display2#Display2 Info|Display2 Info]]と同様にグラフのピークの表示やズームができる</div>
+
<div>You can view the peak of graph and zoom as well as [[Display2#Display2 Info|Display2 Info]].</div>
 
<br>
 
<br>
  
 
====Image Info====
 
====Image Info====
−
<div>クリックした箇所のdataが得られる</div>
+
<div>Get data of the clicked point.</div>
 
[[File:Outdata4-Information-Display2.png]]<br>
 
[[File:Outdata4-Information-Display2.png]]<br>
 
<br>
 
<br>
  
 
====Roi Info====
 
====Roi Info====
−
[[Display2#ROIInfo|Editメニュー]]と同様<br>
+
Same as [[Display2#ROIInfo|Edit Menu]]<br>
 
<br>
 
<br>
  
Line 680: Line 680:
 
<br>
 
<br>
  
−
===Helpメニュー===
+
===Help Menu===
 
<table>  
 
<table>  
 
<tr>  
 
<tr>  

Latest revision as of 08:06, 20 August 2014

Display2 is the Command for image display on Eos. It can also cut out ROI(Region of Interest) from image. In addition, it can display Fourier transform image. And, in the case of 3D data, it can display its section.

List of option

Main option

Option Essential/Optional Description Default
-i Optional Input: mrcImage NULL
-t Optional Template for InputFile 85.roi
-o Optional Logfile .EosLog
-L Optional LowThreshold 0.0(if not set, not use.)
-H Optional HighThreshold 0.0(if not set, not use.)
-Zoom Optional Zoom for InputFile 1.0
-Inverse Optional Inverse (HighValue(dark)<->LowValue(bright)) for InputFile
-display Optional :0.0
-geometry Optional Initial size and position of window. 1024x1024+0+0
-c Optional ConfigurationFile NULL
-m Optional Mode 0
-h Optional Help 　
If not set -L or -H, estimate contrast at centre 64x64 image.


-m details

Value Description
0


-geometry 's argument format

-geometry (Size x)x(Size y)+(Position x)+(Position y)
Either Size or Position don't have to set.


Execution example

Input file image

Input-1VOM-N-2D.png

Min

Max
Mean
SD

SE

-18651.7 (10, 1, 0)

52942.7 (24, 39, 0)
7214.87
10067.6

125.845


Case: Options only essential

Outdata-Display2.png

File

File(Seq)
Edit
Window
ROI
Operation
Information

Help

file operation

Seq file operation
Edit
Window operation
ROI file creation
Image Process
Information display

Help


Option -L, -H

Case: L=0, H=30000

Set -L, -H about image, then it can display at wished range.

Outdata-LH-Display2.png

Option -Zoom

Case: Zoom=2

Outdata-Zoom-Display2.png

Option -Inverse

Outdata-Inverse-Display2.png

Option -geometry

Case: geometry=250x350+100+100

The following window is shown right bottom than default.

Outdata-geometry-Display2.png

File Menu

Outdata-File-Display2.png

Open

New
Save Image(PS) As
Save Image(BYTE) As
Extract ROI(REAL) As
Save Canvas(PS) As

Exit

Open the file at same window.

Open the file at new window.
Save as PS file.
Save as file. (Not implemented)
Extract as ROI file
Save image as PS file

Exit


Open


New


Save Image(PS) As



Save Image(BYTE) As



Extract ROI(REAL) As

Output as ROI file by setting range and size.


Save Canvas(PS) As

Save PS file as the following.

Outdata-File1-Display2.png

File(Seq) Menu

Outdata-File(Seq)-Display2.png

Open
New

Open the file at same window.
Open the file at new window.


Open


New


Edit Menu

Outdata-Edit-Display2.png

Cancel

OK
Move
Resize
Rotate
All Delete
Delete
ZoomIn
ZoomOut

ROIInfo

Cancel the cut out region.

Determine the cut out region.(MultiShape only)
Move the cut out region.
Resize of the cut out region.
Rotate the cut out region.
Delete all cut out region.(MultiShape only)
Delete one cut out region.(MultiShape only)
Zoom in
Zoom out

Open ROI Information Window


Cancle

Cancel the cut out region.
Outdata1-Display2.png -> Outdata-Cancle-Display2.png


OK

Determine the cut out region. (Before: Blue, After: Green)
Outdata-OK-Display2.png -> Outdata1-OK-Display2.png


Move

Move by dragging.
Outdata1-Display2.png -> Outdata-Move-Display2.png


Resize

Resize by dragging.
Outdata1-Display2.png -> Outdata-Resize-Display2.png


Rotate

Rotate by dragging.
Outdata1-Display2.png -> Outdata-Rotate-Display2.png


All Delete

Delete all cut out region.
Outdata3-ROIInfo-Display2.png -> Outdata1-AllDelete-Display2.png


Delete

Delete the Current cut out region.
Outdata2-Display2.png -> Outdata-Delete-Display2.png
Outdata3-ROIInfo-Display2.png -> Outdata1-Delete-Display2.png


ZoomIn

Zoom in at range: 1/n <-> origin <-> n times
Outdata-Display2.png -> Outdata-ZoomIn-Display2.png


ZoomOut

Zoom out at range: 1/n <-> origin <-> n times
Outdata-Display2.png -> Outdata-ZoomOut-Display2.png


ROIInfo

Set and Output ROI file.
Case: Rectrangle

Outdata-ROIInfo-Display2.png

Case: Line

Outdata1-Line-Display2.png

Case: Spline

Outdata1-Spline-Display2.png

Extract
Extract ROI file


AfterExtract
If you check View, open the new window of output ROI file after extract.(foreground only)
Outdata-AfterExtract-Display2.png -> Outdata1-AfterExtract-Display2.png


Redraw


MultiShape
It can output multiple ROI files, and displays the MultiShape option.

Outdata1-ROIInfo-Display2.png

If you check Analysis, displays the FFT button.

Outdata2-ROIInfo-Display2.png

Window Menu

Outdata-Window-Display2.png

New Wondow

Open new window.


New Window

Outdata1-Window-Display2.png

ROI Menu

Outdata-ROI-Display2.png

Rectangle

Line
Spline
Create
Select
ZoomIn
ZoomOut
MultiROI
SizeLock

ROIInfo

Rectangle is cut out region.

Line is cut out region.
Spline is cut out region.
Create new cut out region.
Select a cut out region.(MultiShape only)
Zoom in
Zoom out
Cut out multiple ROI files

View ROI Information


Rectangle

Rectangle is cut out region.

Outdata1-Display2.png

Cut out image
Outdata-Extract-Display2.png

Min

Max
Mean
SD

SE

-10973.5 (23, 0, 0)

52942.7 (19, 34, 0)
12818.1
10974.8

304.857


-o 's Log data
mrcImageROI -i Input-1VOM-N-2D.mrc -o Outdata.mrc -m 2 -r 5.0 5.0 40.0 5.0 40.0 40.0 5.0 40.0


Line

Line is cut out region.

Outdata-Line-Display2.png

Spline

Spline is cut out region.

Outdata-Spline-Display2.png

Cut out image
Outdata2-Spline-Display2.png

Min

Max
Mean
SD

SE

-18651.7 (51, 1, 0)

52942.7 (12, 7, 0)
8339.4
10634.9

73.3183br>


-o 's Log data
mrcImageUnbentROI -i Input-1VOM-N-2D.mrc -o Outdata.mrc -x 80 -r 9.0 12.0  74.0 12.0  37.0 26.0  62.0 39.0  41.0 73.0  23.0 72.0  10.0 65.0  19.0 53.0  6.0 34.0  8.0 14.0


Create

Create new cut out region.
Outdata1-Display2.png -> Outdata-Create-Display2.png


ZoomIn

Same as Edit Menu


ZoomOut

Same as Edit Menu


MultiROI

It can cut out multiple ROI files


SizeLock


ROIInfo

Same as Edit Menu

Operation Menu

Outdata-Operation-Display2.png

fft2d

Perform FFT


fft2d


Information Menu

When right-click on the image, open the same menu.
Outdata-Information-Display2.png

Display2 Info

mrcImage Info
Image Info
Roi Info
LayerLine Info
Projection Info
Section Info
CTF Info
UnitCell Info

Scale Info

Display the graph about density and frequency.


Display2 Info

Outdata1-Information-Display2.png

When push right top button(line1), display the peak of graph.
Outdata-Display2Info-Display2.png -> Outdata1-Display2Info-Display2.png


When drag on the graph, zoom in. (multiple operation allow.)
Outdata-Display2Info-Display2.png -> Outdata2-Display2Info-Display2.png


When right-click, zoom out by one step.
Outdata2-Display2Info-Display2.png -> Outdata-Display2Info-Display2.png


mrcImage Info

Display mrcImage's image Information.

Outdata2-Information-Display2.png

You can view the peak of graph and zoom as well as Display2 Info.


Image Info

Get data of the clicked point.

Outdata4-Information-Display2.png

Roi Info

Same as Edit Menu

LayerLine Info


Projection Info


Scetion Info


CTF Info


UnitCell Info

Outdata3-Information-Display2.png

Scale Info


Help Menu

Outdata-Help-Display2.png

Help

Help


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