When I open sample images using File>Open Samples...
the bioformats import menu pops up when I select ok, the following pops up: and then then image opens The following js does something similar, but only the Opener pop-up is seen. imp = IJ.openImage("http://imagej.nih.gov/ij/images/boats.gif"); imp.show(); I went back to version 1.47, but it still happens there (it has been happening for a while, but I finally am getting around to asking). I am running Fiji, so I tried to deselect the bio-formats update site. but a strange this happened -- no files were listed to remove, and the updater offered no changes regardless of whether that site was selected or not. tnx in advance for any ideas about this. --aryeh -- Aryeh Weiss Faculty of Engineering Bar Ilan University Ramat Gan 52900 Israel Ph: 972-3-5317638 FAX: 972-3-7384051 -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
Hi Aryeh,
It seems like a bug in the "Cache Sample Images" command under File > Open Samples. I could reproduce the behavior you describe by first running Cache Sample Images, and then trying to open a sample image. The issue can be avoided by deleting your Fiji.app/samples directory—then the sample images will load from their remote URLs again. As for the Bio-Formats update site: it is for Bio-Formats daily builds. The base Fiji distribution ships with Bio-Formats (latest release version) installed. So unticking that site won't necessarily remove any files. It may downgrade versions of Bio-Formats JAR files from snapshot to release versions, depending on whether there is any new build since the last release. Regards, Curtis On Wed, Jul 3, 2019 at 8:33 AM Aryeh Weiss <[hidden email]> wrote: > When I open sample images using File>Open Samples... > the bioformats import menu pops up > > when I select ok, the following pops up: > > and then then image opens > > The following js does something similar, but only the Opener pop-up is > seen. > imp = IJ.openImage("http://imagej.nih.gov/ij/images/boats.gif"); > imp.show(); > > I went back to version 1.47, but it still happens there (it has been > happening for a while, but I finally am getting around to asking). > I am running Fiji, so I tried to deselect the bio-formats update site. > but a strange this happened -- no files were listed to remove, and the > updater offered no changes regardless of whether that site was selected > or not. > > tnx in advance for any ideas about this. > --aryeh > > -- > Aryeh Weiss > Faculty of Engineering > Bar Ilan University > Ramat Gan 52900 Israel > > Ph: 972-3-5317638 > FAX: 972-3-7384051 > > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
Hi Curtis
Thank you for your quick and accurate reply. Removing the samples directory avoids the problem. Best regards --aryeh On 03/07/2019 22:27, Curtis Rueden wrote: > Hi Aryeh, > > It seems like a bug in the "Cache Sample Images" command under File > > Open Samples. I could reproduce the behavior you describe by first > running Cache Sample Images, and then trying to open a sample image. > The issue can be avoided by deleting your Fiji.app/samples > directory—then the sample images will load from their remote URLs again. > > As for the Bio-Formats update site: it is for Bio-Formats daily > builds. The base Fiji distribution ships with Bio-Formats (latest > release version) installed. So unticking that site won't necessarily > remove any files. It may downgrade versions of Bio-Formats JAR files > from snapshot to release versions, depending on whether there is any > new build since the last release. > > Regards, > Curtis > > On Wed, Jul 3, 2019 at 8:33 AM Aryeh Weiss <[hidden email] > <mailto:[hidden email]>> wrote: > > When I open sample images using File>Open Samples... > the bioformats import menu pops up > > when I select ok, the following pops up: > > and then then image opens > > The following js does something similar, but only the Opener > pop-up is seen. > imp = IJ.openImage("http://imagej.nih.gov/ij/images/boats.gif"); > imp.show(); > > I went back to version 1.47, but it still happens there (it has been > happening for a while, but I finally am getting around to asking). > I am running Fiji, so I tried to deselect the bio-formats update > site. > but a strange this happened -- no files were listed to remove, > and the > updater offered no changes regardless of whether that site was > selected > or not. > > tnx in advance for any ideas about this. > --aryeh > > -- > Aryeh Weiss > Faculty of Engineering > Bar Ilan University > Ramat Gan 52900 Israel > > Ph: 972-3-5317638 > FAX: 972-3-7384051 > > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- Aryeh Weiss Faculty of Engineering Bar Ilan University Ramat Gan 52900 Israel Ph: 972-3-5317638 FAX: 972-3-7384051 -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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