save all opened images and changing their name

[inesica]

Hello everybody. I am new to ImageJ, so I would need your help. I want to save all my opened images that are called: Stack_Reg-0001, Stack_Reg-0002 etc. I used a macro from a previously asked question about this:  

// get image IDs of all open images
dir = getDirectory("Choose a Directory");
ids=newArray(nImages);
for (i=0;i<nImages;i++) {
        selectImage(i+1);
        title = getTitle;
        print(title);
        ids[i]=getImageID;

        saveAs("tiff", dir+title);
}

However, since I am using a matlab program that needs the files with a certain name, I need to change their name. I would like to have them as: z0000_t0000, z0001_t0000, z0002_t0000 etc, until z0024_t0000. Is it possible to do this in the macro?
Thank you very much in advance.

[CARL Philippe (LBP)]

Dear inesica,
You were not very far from the solution you are looking for since you just
need to replace the line "saveAs("tiff", dir+title);" with "saveAs("tiff",
dir + "z" + substring(title, 10, lengthOf(title)) +"_t0000");" or if you
want something "slightly" more complicated by "saveAs("tiff", dir + "z" +
substring(title, indexOf(title, "-") + 1, lengthOf(title)) +"_t0000");"
Nevertheless, I'm not really convinced that an ImageJ macro is the most
adapted tool for performing what you trying to do.
And for such a job (and if you are under Windows), I would rather recommend
you Total_Commander that can be found under the following link:
http://www.ghisler.com
They have a very powerful File->Multi-Rename_Tool with which what you are
looking for is done within seconds.
In parallel, Total_Commander has a File->Compare_by_content... tool which is
really cool in the case you have several versions of a given macro and you
want to know what differentiate them.
I hope I helped you to move further in your work and wish you a nice day.
My best regards,
Philippe

Philippe CARL
Laboratoire de Biophotonique et Pharmacologie
UMR 7213 CNRS - Université de Strasbourg
Faculté de Pharmacie
74 route du Rhin
67401 ILLKIRCH
Tel : [phone]

-----Message d'origine-----
De : ImageJ Interest Group [mailto:[hidden email]] De la part de
inesica
Envoyé : lundi 4 avril 2016 10:27
À : [hidden email]
Objet : save all opened images and changing their name

Hello everybody. I am new to ImageJ, so I would need your help. I want to
save all my opened images that are called: Stack_Reg-0001, Stack_Reg-0002
etc. I used a macro from a previously asked question about this:  

// get image IDs of all open images
dir = getDirectory("Choose a Directory"); ids=newArray(nImages); for
(i=0;i<nImages;i++) {
        selectImage(i+1);
        title = getTitle;
        print(title);
        ids[i]=getImageID;

        saveAs("tiff", dir+title);
}

However, since I am using a matlab program that needs the files with a
certain name, I need to change their name. I would like to have them as:
z0000_t0000, z0001_t0000, z0002_t0000 etc, until z0024_t0000. Is it possible
to do this in the macro?
Thank you very much in advance.



--
View this message in context:
http://imagej.1557.x6.nabble.com/save-all-opened-images-and-changing-their-n
ame-tp5016055.html
Sent from the ImageJ mailing list archive at Nabble.com.

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Herbie]

Inesica,

you may have a look at the text handling functions of the ImageJ macro
language:

<http://rsb.info.nih.gov/ij/developer/macro/functions.html>

Is this the desired text-translation?
Stack_Reg-0001 >  z0000_t0000
Stack_Reg-0002 >  z0001_t0000
...

Here is an example snippet:
name = "Stack_Reg-0002";
number = parseInt( replace( name, "Stack_Reg-", "" ) );
number--;
if ( number < 10 ) { name = "z000"; } else { name = "z00"; }
name += "" + number + "_t0000";
print( name );

HTH

Herbie

:::::::::::::::::::::::::::::::::::::
Am 04.04.16 um 10:26 schrieb inesica:

> Hello everybody. I am new to ImageJ, so I would need your help. I want to
> save all my opened images that are called: Stack_Reg-0001, Stack_Reg-0002
> etc. I used a macro from a previously asked question about this:
>
> // get image IDs of all open images
> dir = getDirectory("Choose a Directory");
> ids=newArray(nImages);
> for (i=0;i<nImages;i++) {
>          selectImage(i+1);
>          title = getTitle;
>          print(title);
>          ids[i]=getImageID;
>
>          saveAs("tiff", dir+title);
> }
>
> However, since I am using a matlab program that needs the files with a
> certain name, I need to change their name. I would like to have them as:
> z0000_t0000, z0001_t0000, z0002_t0000 etc, until z0024_t0000. Is it possible
> to do this in the macro?
> Thank you very much in advance.
>
>
>
> --
> View this message in context: http://imagej.1557.x6.nabble.com/save-all-opened-images-and-changing-their-name-tp5016055.html
> Sent from the ImageJ mailing list archive at Nabble.com.
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[CARL Philippe (LBP)]

Dear Herbie,
You can replace your:
If ( number < 10 ) { name = "z000"; } else { name = "z00"; }; name += "" +
number + "_t0000";
By:
name = "z" + IJ.pad(number, 4) + "_t0000"; print(name);
Kindest regards,
Philippe

Philippe CARL
Laboratoire de Biophotonique et Pharmacologie
UMR 7213 CNRS - Université de Strasbourg
Faculté de Pharmacie
74 route du Rhin
67401 ILLKIRCH
Tel : [phone]


-----Message d'origine-----
De : ImageJ Interest Group [mailto:[hidden email]] De la part de Herbie
Envoyé : lundi 4 avril 2016 11:35
À : [hidden email]
Objet : Re: save all opened images and changing their name

Inesica,

you may have a look at the text handling functions of the ImageJ macro
language:

<http://rsb.info.nih.gov/ij/developer/macro/functions.html>

Is this the desired text-translation?
Stack_Reg-0001 >  z0000_t0000
Stack_Reg-0002 >  z0001_t0000
...

Here is an example snippet:
name = "Stack_Reg-0002";
number = parseInt( replace( name, "Stack_Reg-", "" ) ); number--; if (
number < 10 ) { name = "z000"; } else { name = "z00"; } name += "" + number
+ "_t0000"; print( name );

HTH

Herbie

:::::::::::::::::::::::::::::::::::::
Am 04.04.16 um 10:26 schrieb inesica:
> Hello everybody. I am new to ImageJ, so I would need your help. I want
> to save all my opened images that are called: Stack_Reg-0001,
> Stack_Reg-0002 etc. I used a macro from a previously asked question about
this:

>
> // get image IDs of all open images
> dir = getDirectory("Choose a Directory"); ids=newArray(nImages); for
> (i=0;i<nImages;i++) {
>          selectImage(i+1);
>          title = getTitle;
>          print(title);
>          ids[i]=getImageID;
>
>          saveAs("tiff", dir+title);
> }
>
> However, since I am using a matlab program that needs the files with a
> certain name, I need to change their name. I would like to have them as:
> z0000_t0000, z0001_t0000, z0002_t0000 etc, until z0024_t0000. Is it
> possible to do this in the macro?
> Thank you very much in advance.
>
>
>
> --
> View this message in context:
> http://imagej.1557.x6.nabble.com/save-all-opened-images-and-changing-t
> heir-name-tp5016055.html Sent from the ImageJ mailing list archive at
> Nabble.com.
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[inesica]

Thank you very much!!! I will also take a look at Total Commander!

[inesica]

Thank you very much!

However, when I convert my files, the first one is not z0000_t0000 but z0001_t0000. can the program be written otherwise? or how can i then convert all my files from z0001_t0000 to z0000_t0000; z0002_t0000 to z0001_t0000 etc?

Thank you!

[Herbie]

Inesica,

evidently you didn't follow my suggestion.
Why?

Here is the example code again:
//----------------------------------------------------
name = "Stack_Reg-0002";
number = parseInt( replace( name, "Stack_Reg-", "" ) );
number--;
if ( number < 10 ) { name = "z000"; } else { name = "z00"; }
name += "" + number + "_t0000";
print( name );
//----------------------------------------------------

Best

Herbie

:::::::::::::::::::::::::::::::::::::
Am 20.04.16 um 14:52 schrieb inesica:

> Thank you very much!
>
> However, when I convert my files, the first one is not z0000_t0000
> but z0001_t0000. can the program be written otherwise? or how can i
> then convert all my files from z0001_t0000 to z0000_t0000;
> z0002_t0000 to z0001_t0000 etc?
>
> Thank you!
>
>
>
> -- View this message in context:
> http://imagej.1557.x6.nabble.com/save-all-opened-images-and-changing-their-name-tp5016055p5016193.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html