Subject: Packard InstantImager plugin available - msg#00164

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Re: Threshold

I am having difficulty creating binary images using the Threshold  that is called from Image-Adjust.   I want to generate a binary where  the feature of interest is gray 255 and the remainder is 0. I used  the picker to set the gray value to 255 and use the scroll bars to  set upper and lower bounds.  Interestingly, I still see low count  noise even after the lower bound is set well above the noise gray  levels.  Next, when attempting to create the binary, a window  detailing options "Apply LUT' appears where I de-select the option  for black foreground, white background.  The resulting window is a  uniform level (62 in todays attempt) using the red option; using the  black and white option in another attempt results in a uniformly gray  image, again at level 62.  Another attempt using the Black-White  option and picker set to 255 resulted in the entire image being set  to 255.  I am using ImageJ 1.34S on a G5. The easiest way to do this is to check "Black foreground, white background" in the "Apply LUT" dialog and then press shift-i (Edit>Invert). -wayne

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FW: Got a CGI bug when run macro from the command line

Is there anyone knows how to work around this problem? I got the following bug report when I run "java -jar ij.jar brain_vol_measure.txt" at the DOS prompt: Thanks -Judy # Please report this error at # http://java.sun.com/cgi-bin/bugreport.cgi <http://java.sun.com/cgi-bin/bugreport.cgi> # # Java VM: Java HotSpot(TM) Client VM (1.4.2_08-b03 mixed mode) # # Error ID: 4A4E490E4350500243 # # Problematic Thread: prio=7 tid=0x02e6aed0 nid=0x94c runnable # Heap at VM Abort: Heap def new generation total 896K, used 389K [0x10010000, 0x10100000, 0x104f0000) eden space 832K, 46% used [0x10010000, 0x10071770, 0x100e0000) from space 64K, 0% used [0x100e0000, 0x100e0000, 0x100f0000) to space 64K, 0% used [0x100f0000, 0x100f0000, 0x10100000) tenured generation total 11136K, used 2920K [0x104f0000, 0x10fd0000, 0x140100 00) the space 11136K, 26% used [0x104f0000, 0x107ca0f8, 0x107ca200, 0x10fd0000) compacting perm gen total 4864K, used 4654K [0x14010000, 0x144d0000, 0x1801000 0) the space 4864K, 95% used [0x14010000, 0x1449ba58, 0x1449bc00, 0x144d0000) ---------------------------------------------------------------------------- -- Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates (which may be known outside the United States as Merck Frosst, Merck Sharp & Dohme or MSD and in Japan, as Banyu) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system. ---------------------------------------------------------------------------- -- ------------------------------------------------------------------------------ Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates (which may be known outside the United States as Merck Frosst, Merck Sharp & Dohme or MSD and in Japan, as Banyu) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system. ------------------------------------------------------------------------------

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Threshold

I am having difficulty creating binary images using the Threshold that is called from Image-Adjust. I want to generate a binary where the feature of interest is gray 255 and the remainder is 0. I used the picker to set the gray value to 255 and use the scroll bars to set upper and lower bounds. Interestingly, I still see low count noise even after the lower bound is set well above the noise gray levels. Next, when attempting to create the binary, a window detailing options "Apply LUT' appears where I de-select the option for black foreground, white background. The resulting window is a uniform level (62 in todays attempt) using the red option; using the black and white option in another attempt results in a uniformly gray image, again at level 62. Another attempt using the Black-White option and picker set to 255 resulted in the entire image being set to 255. I am using ImageJ 1.34S on a G5. Paul Stutzman

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FW: Got a CGI bug when run macro from the command line

Is there anyone knows how to work around this problem? I got the following bug report when I run "java -jar ij.jar brain_vol_measure.txt" at the DOS prompt: Thanks -Judy # Please report this error at # http://java.sun.com/cgi-bin/bugreport.cgi <http://java.sun.com/cgi-bin/bugreport.cgi> # # Java VM: Java HotSpot(TM) Client VM (1.4.2_08-b03 mixed mode) # # Error ID: 4A4E490E4350500243 # # Problematic Thread: prio=7 tid=0x02e6aed0 nid=0x94c runnable # Heap at VM Abort: Heap def new generation total 896K, used 389K [0x10010000, 0x10100000, 0x104f0000) eden space 832K, 46% used [0x10010000, 0x10071770, 0x100e0000) from space 64K, 0% used [0x100e0000, 0x100e0000, 0x100f0000) to space 64K, 0% used [0x100f0000, 0x100f0000, 0x10100000) tenured generation total 11136K, used 2920K [0x104f0000, 0x10fd0000, 0x140100 00) the space 11136K, 26% used [0x104f0000, 0x107ca0f8, 0x107ca200, 0x10fd0000) compacting perm gen total 4864K, used 4654K [0x14010000, 0x144d0000, 0x1801000 0) the space 4864K, 95% used [0x14010000, 0x1449ba58, 0x1449bc00, 0x144d0000) ---------------------------------------------------------------------------- -- Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates (which may be known outside the United States as Merck Frosst, Merck Sharp & Dohme or MSD and in Japan, as Banyu) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system. ---------------------------------------------------------------------------- -- ------------------------------------------------------------------------------ Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates (which may be known outside the United States as Merck Frosst, Merck Sharp & Dohme or MSD and in Japan, as Banyu) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system. ------------------------------------------------------------------------------