[OpenSPIM] OpenSPIM in 64bit system?
Luke Stuyvenberg
stuyvenberg at wisc.edu
Wed Jul 9 07:45:23 CDT 2014
Hi Kieran and Ke,
I just tested a fresh, completely up-to-date installation of OpenSPIM (*only* OpenSPIM-20140207.zip) on a 64-bit computer. On my machine, the software had the error Ke refers to: "Failed to load the MMCoreJ_wrap native library." The problem seems to happen when OpenSPIM uses a 64-bit JRE to load a 32-bit DLL. Please make sure you install a 32-bit JRE from http://www.java.com .
If you already have a 32-bit JRE installed on your computer, either of these additional steps should help:
This solution may change how other Java applications run:
- Click Start -> Right click "My Computer" -> Properties.
- On the left, click "Advanced System Settings".
- Click "Environment Variables...".
- Under System Variables, click "New..."
- In Variable name, enter "JAVA_HOME". In Variable value, put the full path to the 32-bit JRE (for example, "C:\Program Files (x86)\Java\jre7").
This solution may use some extra hard-drive space, but will only affect OpenSPIM:
- Download and Extract OpenSPIM-20140207.zip. In OpenSPIM.app, make a new folder called "java".
- Copy all files from the Java JRE directory (i.e. "C:\Program Files (x86)\Java\jre7") into this new folder.
Now OpenSPIM will use the 32-bit JRE to run, which should resolve the problem.
Please let me know if this helps!
Luke
On 07/08/14, Kieran Short wrote:
>
> This is not what I did. Just use the openspim.org(http://openspim.org) distribution. It comes with *everything pre installed*. Dont do anything else, you shouldn't need to download the fiji installer. Just open the OpenSpim distribution in compatibility mode. Micromanager will be in the plugins waiting for you.
>
> Fwiw I haven't updated either. But if you download from the openspim.org(http://openspim.org) website it should be relatively fresh and up to date.
>
> Cheers Kieran
> On 09/07/2014 8:04 AM, "Ke Li" <tianlankeke at gmail.com <tianlankeke at gmail.com>> wrote:
>
> > For base installation, you mean install the OpenSPIM/Fiji package here:http://openspim.org/Downloads again?
> >
> > I followed the troubleshooting instructions in the compatibility tab and the result is "its an incompatible application".
> >
> >
> > I did the following steps to open the uManager studio:
> >
> >
> > 1. Download the Fiji package of the continuous release version for Windows 7(64bit) from : http://fiji.sc/Fiji
> >
> >
> > 2. Download the OpenSPIM package (OpenSPIM-20140207.zip) from :http://openspim.org/Downloads
> >
> >
> > 3. Launch Fiji: in the Fiji.app/folder, open ImageJ-win64.exe
> >
> >
> > 4. Update Fiji (and OpenSPIM and uManager): Help->Update Fiji
> >
> >
> > 5. Run Micromanager Studio: In the OpenSPIM.app folder, open ImageJ-win32.exe, then plugins->Micro-manager->Micro-manager studio (Before this step, I have followed your steps and set the compatibility mode of the ImageJ-win32.exe as Windows XP (Service Pack 3))
> >
> >
> > After Step 5, an error shows as follows:
> > Error:Failed to load the MMCoreJ_wrap native library mmcorej.MMCoreJJNI.swig_module_init()V
> >
> >
> > To solve this error, I copied the file MMCoreJ_wrap.dll in the mm folder of the OpenSPIM.app folder into the same directory of the ImageJ-win32.exe. Then when I reloaded the uManager studio from the ImageJ (32bit), the error was as follows:
> > Error:Failed to load the MMcoreJ_wrap native library
> > C:\Users\Kuolab\Downloads\SPIM\OpenSPIM-20140207\OpenSPIM.app\MMCoreJ_wrap.dll: Can't load IA 32-bit. dll on a AMD 64-bit platform.
> >
> >
> > I tried to open the uManager studio from ImageJ-win32.exe and ImageJ-win64.exe, while the second error above happened all the time in the two cases.
> >
> > The camera driver has been installed correctly before based on the test image results.
> >
> >
> > Is there any step I misconducted? (Maybe copying the MMCoreJ_warp.dll into the same directory of the ImageJ-win32.exe is not correct?)
> >
> >
> > Thanks,
> > Ke
> >
> >
> > Ke LiResearch Assistant
> > Biomedical Engineering
> > Johns Hopkins University
> > Phone: 410-934-9802(tel:410-934-9802)
> > Email: kli26 at jhu.edu(javascript:main.compose()
> >
> >
> >
> >
> > On Tue, Jul 8, 2014 at 5:16 PM, Kieran Short <kieran.short at gmail.com(javascript:main.compose()> wrote:
> >
> > >
> > > This is strange. I'm not sure what OpenSPIM fiji build we are running but it works here.
> > >
> > > Have you tried going back to a base installation?
> > >
> > > It sounds odd that uManager can even detect your pc as a "amd64" system as compatibility mode should mask that as 32bit.
> > >
> > > What says "its an incompatible application"?
> > >
> > > Of course, mm *should* be able to load a 32bit dll on 64bit architecture. I don't understand why that should be a problem for mm in the first place. The whole x86 instruction set is encapsulated within the x64 set. To Johannes/Mark is this directly related to the available jre?
> > > On 09/07/2014 5:18 AM, "Ke Li" <tianlankeke at gmail.com(javascript:main.compose()> wrote:
> > >
> > > > Hi Kieran,
> > > >
> > > > I followed your suggestion. While the problem still existed. When I tried to launch the uManager studio from the ImageJ(ImageJ-win32.exe) in the OpenSPIM.app folder, an error: Failed to load the MMCoreJ_wrap native library (Can't load IA 32-bit.dll on a AMD 64-bit platform) showed every time. I did the troubleshooting and the result showed that it's a incompatible application.
> > > >
> > > >
> > > > Is there any other way to solve this problem?
> > > >
> > > >
> > > > Thanks,
> > > > Ke
> > > >
> > > >
> > > > Ke LiResearch Assistant
> > > > Biomedical Engineering
> > > > Johns Hopkins University
> > > > Phone: 410-934-9802(tel:410-934-9802)
> > > > Email: kli26 at jhu.edu(javascript:main.compose()
> > > >
> > > >
> > > >
> > > >
> > > > On Mon, Jul 7, 2014 at 9:03 PM, Ke Li <tianlankeke at gmail.com(javascript:main.compose()> wrote:
> > > >
> > > > > Hi Kieran,
> > > > >
> > > > > Thanks so much for your solution. I'll try it tomorrow.
> > > > >
> > > > >
> > > > > Best,
> > > > > Ke
> > > > >
> > > > > Kieran Short <kieran.short at gmail.com(javascript:main.compose()>于2014年7月7日星期一写道：
> > > > >
> > > > > >
> > > > > > Run it in compatibility mode.
> > > > > >
> > > > > > To do this, do the following.
> > > > > >
> > > > > > Right click imagej/fiji.
> > > > > > Select properties.
> > > > > > Go to the Compatibility tab.
> > > > > > Check the "run this program in compatibility mode for:" box.
> > > > > > Select Windows XP (Service Pack 3).
> > > > > > Click Apply.
> > > > > > Click OK.
> > > > > >
> > > > > > Then try and run it.
> > > > > >
> > > > > > When I can work out how to include plugins during compilation I will try to compile.a win64 version. At such q time i'd happily provide binaries. Im only a part time python progammer though and therefore have little experience with debugging compilation issues. Since Compatibility Mode 'just works' for us, it isn't a high priority for me.
> > > > > >
> > > > > > Cheers Kieran
> > > > > > On 08/07/2014 10:32 AM, "Ke Li" <tianlankeke at gmail.com> wrote:
> > > > > >
> > > > > > > Hi Mark & Luke,
> > > > > > >
> > > > > > > I'm writing to ask whether there is a solution for running the openSPIM software in the 64bit system? (The uManager studio can't be loaded normally in my 64 bit system) Can I get access to the source code for modification?
> > > > > > >
> > > > > > >
> > > > > > >
> > > > > > >
> > > > > > >
> > > > > > >
> > > > > > > Thanks,
> > > > > > > Ke
> > > > > > >
> > > > > > > Ke LiResearch Assistant
> > > > > > > Biomedical Engineering
> > > > > > > Johns Hopkins University
> > > > > > > Phone: 410-934-9802(tel:410-934-9802)
> > > > > > > Email: kli26 at jhu.edu
> > > > > > >
> > > > > > >
> > > > > > >
> > > > > > >
> > > > > > >
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> > > > > > > OpenSPIM at openspim.org
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> > > > > > >
> > > > > > >
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> > > > >
> > > > > --
> > > > > Ke LiResearch Assistant
> > > > > Biomedical Engineering
> > > > > Johns Hopkins University
> > > > > Phone: 410-934-9802(tel:410-934-9802)
> > > > > Email: kli26 at jhu.edu(javascript:main.compose()
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