http://imagej.273.s1.nabble.com/Out-of-Memory-Problems-tp5004033p5004146.html
> On Jul 25, 2013, at 9:14 AM, Hans Wurscht wrote:
>
> > Dear List,
> >
> > I experience the same problem when using the doCommand in a macro:
>
> Thanks to Johannes Schindelin, this bug is fixed in the ImageJ 1.48b daily
> build. Use the following macro to demonstrate both the problem and the fix.
> Run it using ImageJ 1.48b1 and the memory used to open the 100 images is
> reclaimed when you run the garbage collector by clicking in the "Memory"
> window. With ImageJ 1.48a and earlier, the memory is not reclaimed when you
> click in the "Memory" window.
>
> -wayne
>
> doCommand("Monitor Memory...");
> setBatchMode(true);
> for(i=0;i<100;i++) {
> run("Open Image");
> wait(20);
> }
> run("Close All");
> exit;
>
> macro "Open Image" {
> newImage("Untitled", "8-bit ramp", 1024, 1024, 1);
> }
>
>
> > openImage();
> >
> > macro "open image in new thread"{
> > newImage("Untitled", "8-bit white", 400, 400, 1);
> >
> > }
> >
> > function openImage(){
> > setBatchMode(true);
> > for(i=0;i<1000;i++){
> > doCommand("open image in new thread");
> > wait(100);
> > }
> > wait(3000);
> > run("Close All");
> > setBatchMode(false);
> >
> > }
> >
> > Once finished, you can see that the threads are terminated, but the
> > memory is not freed up.
> >
> > Running the garbage collector from the menu does not help. I use the
> > doComand option to run some live analyis during timelapse recordings,
> > and this bug leads to an out of memory error and failue of the
> > analysis.
> >
> > I tried IJ 1.47u, 1.48a with openJDK 6 / 7 on Ubuntu 12.04 32bit
> > without success.
> >
> > Do you have any suggestions for me?
> >
> > Thanks a lot,
> >
> > Gabriel
> >
> >
> > On Jul 23, 2013, at 1:34 PM, Johannes Schindelin wrote:
> >
> >> Hi Olivier,
> >>
> >> On Tue, 23 Jul 2013, Burri Olivier wrote:
> >>
> >>> I've tried loading a large dataset over and over through a macro (Load,
> >>> close loop) after updating Fiji And I still get the out of memory
> error.
> >>
> >> Well, this is my fault. For some reason, I failed to upload a new
> version
> >> of ij-legacy.jar when I said that I had. But now it worked, and this
> >> beautiful macro demonstrates that my fix works at least with the Clown
> >> sample (I was unable to run Plugins>Utilities>Monitor Memory... from the
> >> macro without blocking the rest of the commands, so please call that by
> >> hand before running it):
> >
> > A macro can run Plugins>Utilities>Monitor Memory without blocking by
> > using the doCommand() macro function, which runs a menu command in a
> > separate thread. For example, this macro starts the Memory Monitor and
> > then opens and closes 5000 1MB images.
> >
> > setBatchMode(true);
> > doCommand("Monitor Memory...");
> > n = 5000;
> > for (i = 0; i < n; i++) {
> > showStatus((i+1)+"/"+n);
> > newImage("Untitled", "8-bit ramp", 1024, 1024, 1);
> > close();
> > }
> >
> > -wayne
> >
> >> path = getDirectory("imagej") + "samples/clown.jpg";
> >> useBF = true;
> >> setBatchMode(true);
> >> for (i = 0; i < 100; i++) {
> >> if (useBF) {
> >> run("Bio-Formats", "open=[" + path + "] "
> >> + "autoscale color_mode=Default "
> >> + "view=Hyperstack stack_order=XYCZT");
> >> } else {
> >> open(path);
> >> }
> >> close();
> >> }
> >>
> >> For easy debugging and extensive testing, I also tried with "!true" for
> >> both useBF and setBatchMode(), and the issues that I could indeed
> >> reproduce with the Fiji version as of half an hour ago are now gone.
> >>
> >> Ciao,
> >> Dscho
> >>
> >> P.S.: The macro assumes that you have unpacked Fiji into your home
> >> directory and that you ran File>Open Samples>Cache Sample Images. This
> is
> >> so far a Fiji-only function (Wayne, if you read this and re-implement it
> >> for ImageJ 1.x, please let me know so that I can prevent breakages in
> >> Fiji).
> >>
> >> --
> >> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html> >
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