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Bug 635 - ImageJ updater/update sites minor issues
ImageJ updater/update sites minor issues
Status: RESOLVED MOVED
Product: Fiji
Classification: Unclassified
Component: Plugins
unspecified
PC Windows
: P4 normal
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2013-07-16 03:59 CDT by Benoit Aigouy
Modified: 2013-07-17 02:07 CDT
2 users (show)

See Also:

Description Benoit Aigouy 2013-07-16 03:59:16 CDT
Hi everyone,

Sorry, for my previous 'back-handed bug report', I hope I am now doing things the proper way. I can reproduce the bug I reported to the FIJI-devel list. Here is a more detailed list of issues I encountered with update sites and the ImageJ updater:

in some cases the updater does not automatically mark for installation all the files that are present in the FIJI update site (this bug seems to be variable as it sometimes works for unknown reasons, here is a non working example)
http://youtu.be/GqOloe3ftwE
here is an example where it kind of worked, both tests were done on the same day with the same up-to-date FIJI installation (in my hands it most often does not work though especially with the http://sites.imagej.net/Aigouy/ site and it most often works with http://srv-gred.u-clermont1.fr/labmirouse/software/FIJI_update_site/)
http://youtu.be/VI3rDuqoVz8
(ps: on this second video one can also see several other bugs of the 'manage update sites' window, for example, whenever a URL is added to the 'URL' list, it gives a "Not valid URL:" error even when the URL is valid. Another non intuitive feature of the 'manage update sites' window is that the user cannot add a name if he hasn't first entered a URL, as you can see from the video I always make the mistake, probably because it is more intuitive for me to fill columns from left to right and therefore to enter a name first and then only enter the URL. Anyways, when one first tries to enter some text in the 'name' field (whitout having added a URL first), this field captures the focus forever until the 'esc' key is pressed, pressing 'enter' key does not work for example neither does clicking or double clicking on the adjacent 'URL' field.)

Another annoying thing is that whenever I uncheck the checkbox associated to a FIJI update site, I had previously manually added, it is forever gone from my list when I restart FIJI/relaunch the updater (please always have a look at the last line in the 'manage update sites' window to see what I mean)
http://youtu.be/G57ndGsmm_g

hope this will help making the updater which is already great even greater.

best,

Benoit

ps: the bugs are system independent because I can reproduce them on linux

Information about your version of Java:

  os.arch => x86
  os.name => Windows 7
  os.version => 6.1
  java.version => 1.6.0_24
  java.vendor => Sun Microsystems Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_24-b07
  java.vm.name => Java HotSpot(TM) Client VM
  java.vm.version => 19.1-b02
  java.vm.vendor => Sun Microsystems Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => sun.awt.Win32GraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => windows
  file.separator => \

The up-to-date check says: CHECK_TURNED_OFF

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to: C:\Fiji.app/java/win32/jdk1.6.0_24//jre
  ij.dir => C:\Fiji.app

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Comment 1 Johannes Schindelin 2013-07-16 09:31:58 CDT
Summary:

- intermittently, not all files are marked for update/install when adding http://sites.imagej.net/Aigouy/

- whenever a URL is typed in manually, it complains 'Not a valid URL!'

- when adding update sites, the name cannot be changed before setting the URL

- manually added update sites are forgotten when unchecked.
Comment 2 Johannes Schindelin 2013-07-16 10:00:05 CDT
First three comments after watching the first YouTube screen cast:

- your update site was already selected, but nothing installed from it. That is the indication for the updater that you added an update site but marked every single of its files to *not* be installed (because when you add an update site, all of its files are marked for installation/update by default).
 
- instead of clicking on each "Not installed" and changing it to "Install it" you could have clicked on the first line, then Shift-clicked on the last row (essentially marking all of the plugins), then either right-clicked and marked "Install" or clicked on the button "Install" (which you did click in the end, but it did nothing because the only line that was marked was already slated for installation)

- After installation, the updater clearly states that you have to restart ImageJ. That was not done, so let's not expect that the installation is complete.
Comment 3 Johannes Schindelin 2013-07-16 10:02:39 CDT
Fourth observation: it is recommended to edit the list http://fiji.sc/List_of_update_sites. This is not so much for advertising but for convenience *of the users*.

But of course, you are not forced to do so, you can keep the procedure in place as it is now.
Comment 4 Benoit Aigouy 2013-07-16 10:39:19 CDT
-Of course I didn't mark all files as 'not' to be installed!!! Anyways, maybe I'm getting closer to the solution. I reinstalled FIJI and updated it to be sure I was using the most recent version of FIJI and of the updater. I then restarted. I then entered the following update site URL http://sites.imagej.net/Aigouy/ and closed the manager and indeed, it did offer to install SF, which I did. I closed FIJI and then I deleted the SF folder from the FIJI plugins directory. I started FIJI again and it did not offer me to install files although all the SF files were missing. I repeated the same procedure with the other URL (http://srv-gred.u-clermont1.fr/labmirouse/software/FIJI_update_site/) and there, even after I deleted the SF folder FIJI offered me to reinstall all SF files when I restarted it. With this procedure the bug seems to be very reproducible. I hope this will help you spot the bug.

-thanks for the tip on how to install several things, I did not know how to do that.

-I believe I restarted FIJI after I ran the updater but I might be wrong, anyway the bug is not there and I have no doubt about this.

-thanks for the link to the FIJI update site list, I'll add the link there when this update site will work in the meantime I'll stay with the old method
Comment 5 Johannes Schindelin 2013-07-16 11:48:13 CDT
I certainly hope you did *not* delete SourceForge. (Read: your abbreviation "SF" is highly misleading.)

As to deleting the SF folder: there *has* to be a way to tell the updater that some file was uninstalled intentionally. The most intuitive way to do so is to delete it. That is what you did, and faithful updater did not bother you with the intentionally uninstalled files anymore.

In other words: this is not a bug.

So the remaining two things are

- the name should be editable before a valid URL is provided

- non-standard update sites should be retained even if they are disabled
Comment 6 Benoit Aigouy 2013-07-16 12:15:13 CDT
Well since the behaviour varies according to the URL I put in the FIJI update site I still consider this as a bug, but if you consider it's not then it's not, end of the story. (Just a naive question though, how do you check that an update site is working if you can't delete the folder and see that afterwards the updater offers you to reinstall everything ?)

So the remaining three things are

- the name should be editable before a valid URL is provided

- non-standard update sites should be retained even if they are disabled

- whenever a URL is typed in manually, it complains 'Not a valid URL!'
Comment 7 Johannes Schindelin 2013-07-16 12:56:30 CDT
The reason why it worked for the other URL is: you added it *after* the files were deleted. So the updater had no chance to see "these files are available from that update site, but the user does *not* want to see them".
Comment 8 Johannes Schindelin 2013-07-16 14:32:33 CDT
I will address those issues in http://trac.imagej.net/ticket/1957 (because the updater now lives in imagej.git).
Comment 9 Benoit Aigouy 2013-07-17 02:07:58 CDT
Thanks Johannes for the great job and for the explanations on the logic of the updater