CellProfiler 2.1.0 does not startup

Image Analysis
#1

Hi,
I am sorry, but I was running new CP version on win64.
However I dont have a clue what happened, but startup of CP is fast as it shuts down.
Just seen black screen and logo of CP for 1 second. Then program disappears.

I tried to reinstall, tried to install the trunk… Nothing help.
Older version run alright.

Do you have some advise, please?
Thank you very much.
Best wishes
Josef

#2

Hi Josef,
An initial question: What OS are you running from? Windows, Mac or other?
-Mark

#3

Hi Mark,
Windows 7, 64bit. SP1
4CPU. i3-2105 CPU @ 3.1GHz, 4GB RAM.

Thank you for reply and sorry for incomplete description.
Josef

#4

Can you give a try running CP 2.1 from the command line a try? Follow these instructions:

  • Start a command line window; see here
    for how to do this. - From the command prompt, type cd "c:\program files\CellProfiler"assuming you installed it in the default location.
  • Type cellprofiler.exeto start the program.

If CP quits suddenly, it should output any error messages to the command window. If so, could you copy-and-paste the messages in the reply to this thread? (As an aside, you should either un-install CP 2.0 first before installing 2.1 to be on the safe side, or install 2.1 to a different folder)
-Mark

#5

Dear Mark,
here it is…

Microsoft Windows [Verze 6.1.7601]

C:\Users\Jaroš>cd “c:\program files\CellProfiler”

c:\Program Files\CellProfiler>cellprofiler.exe
Traceback (most recent call last):
File “cellprofiler\utilities\jutil.pyc”, line 311, in start_thread
File “javabridge.pyx”, line 537, in javabridge.JB_VM.create (javabridge.c:3796
)
UnicodeEncodeError: ‘ascii’ codec can’t encode character u’\u0161’ in position 7
061: ordinal not in range(128)
Failed to create Java VM
Uncaught exception in CellProfiler.py
Traceback (most recent call last):
File “CellProfiler.py”, line 168, in main
File “cellprofiler\cellprofilerapp.pyc”, line 37, in init
File “wx_core.pyc”, line 7978, in init
File “wx_core.pyc”, line 7552, in BootstrapApp
File “cellprofiler\cellprofilerapp.pyc”, line 67, in OnInit
File “cellprofiler\gui\cpframe.pyc”, line 26, in
File "cellprofiler\modules_init.pyc", line 21, in
File “cellprofiler\cpmodule.pyc”, line 28, in
File “cellprofiler\pipeline.pyc”, line 59, in
File “bioformats_init_.pyc”, line 187, in
File “bioformats_init_.pyc”, line 157, in start_cellprofiler_jvm
File “cellprofiler\utilities\jutil.pyc”, line 362, in start_vm
RuntimeError: Failed to start Java VM
Load ilastik Core
stopping worker thread 0
stopping worker thread 1
stopping worker thread 2
stopping worker thread 3
stopping worker thread 4

c:\Program Files\CellProfiler>

I checked also the Java and it looks it works fine. Im using the Oracle Java, but no problem to change it.
Unistalling all versions and installing the new one I did. No change.
Josef

#6

I also tried to reinstall of Java. It didnt help… /: (Java 8 - Oracle)

#7

Hi Josef,

It looks like a Unicode/non-English character issue, possibly in your preferences or your Default Input/Output Directories. Take a look at this FAQ for a possible fix.

Cheers,
David

#8

Dear David and Mark,
solved. Even deleting of default pathways in registers didnt help. Probably creation of Java VM was somewhere in different folder of username with diacritics. So I created new profile/account without diacritics and everything works!

Thank you very much.
Best wishes.
Josef

1 Like
#9

OK, glad it was solved at least!
David

#10

I just spent some time solving this issue on my computer - same case - ascii non-compatible characters in username of windows. Unfortunately, I found this thread after all the effort. Could you fix this bug? This is 3 years old thread and the bug is still there…

#11

Hello,

I’m sure you will appreciate that we do not have a huge team of software engineers supporting this free software.

We do welcome pull requests that fix bugs - one for this would be most welcome.

Anne