Re: open text image sequence

Posted by amirhosein999 on Sep 03, 2015; 5:14pm
URL: http://imagej.273.s1.nabble.com/open-text-image-sequence-tp4999149p5014235.html

Can you please go through details on how we should use this script in ImageJ or Fiji. I tried to do that but couldn't. Maybe because I'm not much familiar with using macros in Fiji. Here is the things that I've done so far:

I saved this script in text file (ImportTextImageSequence.txt):
------------------------------------------------------------
dir = getDirectory("Choose directory");
list = getFileList(dir);
run("Close All");
setBatchMode(true);
for (i=0; i<list.length; i++) {
 file = dir + list[i];
 run("Text Image... ", "open=&file");
}
run("Images to Stack", "use");
setBatchMode(false);
------------------------------------------------------------
And then opened Fiji, Plugins>Macros>Install... and select above text file. I saw a short message afterwards:

    "1 macro installed."

Then I went to Plugins>Macros>Run... and again chose the .ijm installed file (ImportTextImageSequence.ijm) at '/opt/Fiji/plugins/'. A new window was opened with title "Choose directory". It looks the macro is working, but I do not know which directory I should choose afterwards. I tried to choose the directory containing my text images (image_01.txt, image_02.txt, ...) but it gave me this error message:

    "Line 2 is not the same length as the first line."

Also, when I tried to open by File>Import>Image Sequence..., I saw this message:

    "The folder does not apper to contain any TIFF, JPEG, BMP, DICOM, GIF, FITS or PGM files."

which means that text image sequence is not installed at this part of Fiji at least.

I searched a lot but could not find anyone has explained the procedure in details. It looks that just you guys have discussed about this macro here. I would be thankful if you clarify this issue.

P.S. My Fiji is updated at CentOS 7 and I used it earlier without any problems in image processing and also importing TIFF image sequences.