Greetings!
The complete stack trace for the error is below[1]. I'm working on putting sample images from genepix 6.0 somewhere visible - I'm concerned about confidentiality and so forth so I'm talking with the scientists. <time passes> OK, I got the ok from Molecular Devices to post some of their sample data but it seems that they changed the format since the sample images were developed because the multiimage tiff here: $ identify Yeast1.tif Yeast1.tif[0] TIFF 1928x1749 1928x1749+0+0 PseudoClass 65536c 12.9mb 0.420u 0:02 Yeast1.tif[1] TIFF 1928x1749 1928x1749+0+0 PseudoClass 65536c 12.9mb does not match the multi-image tiff below. I'm going to analyze this array and try to put it into base as single-image tiffs but I need to add the Yeast reporters from the galfile. Whew! Anyway... For my *real* data, this is what identify tells me about the images: $ identify 13298608_* 13298608_532-uncompressed.tif TIFF 1884x5472 1884x5472+0+0 DirectClass 29.5mb 0.420u 0:02 13298608_635-uncompressed.tif[1] TIFF 1884x5472 1884x5472+0+0 DirectClass 29.5mb 0.440u 0:02 and for the genepix multi-image tiff: $ identify 13298608.tif 13298608.tif[0] TIFF 495x1396 495x1396+0+0 PseudoClass 65536c 35.5mb 2.510u 0:11 13298608.tif[1] TIFF 495x1396 495x1396+0+0 PseudoClass 65536c 35.5mb 2.440u 0:11 13298608.tif[2] TIFF 1884x5472 1884x5472+0+0 PseudoClass 65536c 35.5mb 2.380u 0:11 13298608.tif[3] TIFF 1884x5472 1884x5472+0+0 PseudoClass 65536c 35.5mb 1.450u 0:09 Note that this spotfinding process (with single image tiffs) doesn't ALWAYS fail. I built this table to show success: Xscale YScale Xoffset Yoffset Size Result? 1 1 1000 1000 24 Yes 2 2 1000 1000 24 No 1 1 264 216 24 Yes, but the spots are TINY. 10 10 264 216 24 No 10 10 100 100 24 No This was built using the single-image tiffs under the assumption that base2 will choose the wrong offsets (0,1) for the multiimage tiff - as you can see above genepix 6 seems to put previews first. In future versions of base2 would it be possible to *choose* the offsets? In 2.2.2 I can only specify the same image name twice - once in the red box and once in the green. I'll put images somewhere as soon as I can so that you can see them. Chad Matsalla National Research Council of Canada [1] java.lang.ClassCastException: [[B at com.sun.media.jai.opimage.BandMergeOpImage.shortLoop(BandMergeOpImage.java:3 41) at com.sun.media.jai.opimage.BandMergeOpImage.computeRect(BandMergeOpImage.java :199) at javax.media.jai.PointOpImage.computeTile(PointOpImage.java:977) at com.sun.media.jai.util.SunTileScheduler.scheduleTile(SunTileScheduler.java:9 12) at javax.media.jai.OpImage.getTile(OpImage.java:1139) at com.sun.media.jai.opimage.CropOpImage.getTile(CropOpImage.java:133) at javax.media.jai.PlanarImage.getData(PlanarImage.java:2098) at javax.media.jai.StatisticsOpImage.getProperty(StatisticsOpImage.java:300) at com.sun.media.jai.opimage.ExtremaOpImage.getProperty(ExtremaOpImage.java:108 ) at javax.media.jai.RenderedOp$1.getProperty(RenderedOp.java:1819) at javax.media.jai.PropertyEnvironment.getProperty(PropertyEnvironment.java:207 ) at javax.media.jai.PropertySourceImpl.getProperty(PropertySourceImpl.java:285) at javax.media.jai.WritablePropertySourceImpl.getProperty(WritablePropertySourc eImpl.java:138) at javax.media.jai.RenderedOp.getProperty(RenderedOp.java:1993) at net.sf.basedb.core.SpotImages.rescaleColors(SpotImages.java:805) at net.sf.basedb.core.SpotImages.createSpotImages(SpotImages.java:499) at net.sf.basedb.plugins.SpotImageCreator.run(SpotImageCreator.java:148) at net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest.java :88) at net.sf.basedb.core.InternalJobQueue$JobRunner.run(InternalJobQueue.java:420) at java.lang.Thread.run(Thread.java:595) ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
