NCSA Image Crashing

MANGALAM at SALK-SC2.SDSC.EDU MANGALAM at SALK-SC2.SDSC.EDU
Thu Jan 30 13:30:26 EST 1992


Hi Netoids,
   In response to:

>> Subject: NCSA Image crashes after inverting image
>> 
>> A faculty member in this department is trying to use NCSA image for
>> some analysis of restriction gels (I guess). He's running it on  a Mac
>> II, no floating point chip, 3MB.  It will read the image from the
>> Apple scanner (4 bit , yecch) fine, but the colors are reversed. So,
>> when they try the Invert function, the machine hangs.
>> 
>> Is there some clean way to invert the image *before* putting it into
>> NCSA Image or is there an alternative?
>> 
>> Thanks,
>> dan davison
>> --
>> dr. dan davison/dept. of biochemical and biophysical sciences/univ. of
>> Houston/4800 Calhoun/Houston,TX 77204-5934/davison at uh.edu/DAVISON at UHOU

Part 1:
   I don't know if it's true for NCSA Image, but it's true for NIH Image 
(which might be a better choice for analyzing restriction maps, as some 
Gel-related macros are included), that it requires a floating point chip for 
correct operation.  Mac II's used to include FPUs as standard, but that common 
sense was broken with the IIsi and LC.  NIH Image will detect the lack of a 
FPU and refuse to open, but NCSA Image might not and just crash trying to use 
it.  In both cases (if indeed this is the case) the problem can be solved 
by adding the FPU (available on NUBUS card adapters) for about $170, or if 
you don't require the FPU for most of the things you do, FTP the excellent 
and widely available PseudoFPU which will trap the errant calls and redirect 
them to software emulation.  In my hands, it solved the NIH Image (and MS 
Excel) problem on a Mac IIsi and in fact, when I got the real FPU, I was
disapointed at the small increase in overall speed. 

Part2:
   You might also suggest that the person (if he hasn't already) also try 
out the latest incarnation of NCSA GelReader (2.0), which does do restriction
size mapping as well as pseudo-densitometry.  Also, Kay Hofmann's COMAP, if 
he has access to a PC.

Part3:
   This might be a good place to bring up the availability of the San Diego 
Supercomputer Center's Image Tools which is a set of software tools for 
converting and manipulating just about any bitmap format to just about any 
other bitmap format (GIF, HDF, IFF, MacPaint, PBM, PGM, PIC, PICT, PICT2, 
PIX, Postscript (sort of), PPM, RAS, etc, etc, etc).  It supports 
AlliantFX/2800, AUX, Cray UNICOS, ULTRIX, AIX, NeXTstep, IRIX, Sun OS, and 
now more.  Unfortunately, left out of that list is native MacOS, which they 
say is just too weird to bother with.  However, if you can get your image to 
one of the supported architectures, you can more or less do what you want.
Available by anonymous FTP to sdsc.edu (132.249.20.22).
   Despite their insistence that the MacOS is not worth supporting for their 
image tools, they have also put together a very nice demo/teaching aid called 
"Interactive Color" which is, as it sounds, a very nice guide to color in 
Computer Graphics.  It's on the LARGE side (about 3.5 megs, I seem to 
remember) so get it at night.  It is also at SDSC.EDU in 
[.sdscpub.applemac.graphics] as interactive_color_sit.hqx. A color monitor 
is suggested.... 

Harry Mangalam                                       Vox:(619) 453-4100, x250
Biocomputing                                               Fax:(619) 558-6207
Salk Institute                                     mangalam at salk-sc2.sdsc.edu
Box 85800                                          mangalam at salk-sgi.sdsc.edu
San Diego, CA, 92186-5800





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