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  • Maximum memory in Image J
    have read your manual more carefully We moved the java and class files as you recommended and re do the Process converted Image process one That time the Particle process started well but after the analysis of about one third of the image it stopped and restarted the analysis of particles from the beginning to the one third and restarted again and again We finally aborted the process Hereby is the copy of the log obtained Do you think that the Analysis method in Particles Process is correct Elvire Caro PID Image Scanning date 20080603 1527 Scanning area large Vuescan version 8 4 57 VueScan Input Perfection4990 Flatbed Media 1 Quality 4 BitsPerPixel 3 MakeGrayFrom 2 PreviewResolution 8 ScanResolution 4 Rotation 3 Mirror 1 Input Options 2 Crop Perfection4990 Flatbed AutoOffset 0 CropSize 0 XSize 30220 YSize 50156 PreviewArea 0 PreviewXOffset 6738 PreviewYOffset 80 PreviewXSize 30223 PreviewYSize 50157 Crop Options 2 Filter Options 2 Color Perfection4990 Flatbed ColorBalance 0 WhitePoint 0 Brightness 900 Color PixelColors 1 Options 2 Output Perfection4990 Flatbed PrintedUnits 0 Output JPEGFile 0 DefaultFolder C Zooscan test 3jun08 Zooscan scan RawFile 1 RawFileName egg2 1 tif RawFileType 2 RawCompression 0 Copyright Zooscan CNRS 2008 LogFile 0 Options 2 Prefs GraphType 2 ExternalViewer 0 ExternalEditor 0 WindowXOffset 0 WindowYOffset 751 WindowXSize 1600 WindowYSize 399 GuidedMode 0 StartupTip 0 TopPanel 0 AbortMode 0 LUT Image split NO Color Balance manual Min 336 Max 28105 Gamma 1 Order before Grey mode auto no OD range 1 8 Ratio 1 15 Median level 24439 7 Info Hardware Hydroptic v1 Software vuescan8 4 57 ImageType Zooscan Author Caro Sample Project test 3jun08 SampleId egg2 Scanop Caro Ship 999 Scientificprog Zooscan StationId 999 Date 20000101 1200 Latitude 99 99 Longitude 999 99 Depth 999 CTDref CTDfilename Otherref Other reference name Townb 999 Towtype 999 Nettype 999 Netmesh 999 Netsurf 999 Zmax 999 Zmin 999 Vol 999 Fraction Code A FracId FractionId Min 999 Max 999 Subsample SubPart 999 SubMethod motoda CellPart 1 Replicates 1 VolIni 1 VolPrec 1 Observation NaN Process ConfigFile process install both config txt Version 5 00 2008 02 05 Picheral CNRS Multiple image process NO Date 20080604 0908 Image Process vis1 file PROCESS Date 20080604 0908 egg2 1 ConfigDataImg last no created 20080603 1424 100 0 4 2400 0 9 0 150 2 0 025 0 25 2 0 20 0 0 neutral 243 174 1 1 1 pixel 100 0 0 3 100 1 0 0 5 3 993 16 0 8 4 0 1 0 05 0 1 10 both Image process Zooscan 1asep Version 5 03 Picheral CNRS Image path C Zooscan test 3jun08 Image egg2 1 tif Frame 1 Raw image depth 8 bits Raw image size 94695296 Raw Image BackUp as ZIP NO Final Image 8bits Corrected width 12536 Corrected heigth 7552 Grey Level Adjustement YES Resolution 1200 ODxminref 11941 ODyminref 3678 ODxdimref 30 ODydimref 300 OD measured 54 Max min grey difference in OD 72 STD 18 5583 OD correction NO Background correct

    Original URL path: http://zooscan.forumakers.com/t11-maximum-memory-in-image-j (2016-02-14)
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  • Problem to reach the Maximum Memory in Image J: a solution
    the available RAM on their computer is of more than 2 Gb we may have found a solution By default Windows is set to use the minimum virtual size memory allowed by your computer To use the full capacity of your system you can do the following procedure Start Settings Control Panel System In the System Proprties window Select the tab Advanced and click on the button Settings of the Performance part In the Performance options window Select the tab Advanced and click on the button Change In the Performance options window Change the value for Initial size according to what is recommended in the Total paging file size for all drives part Before pressing OK click on the set button to save the new value as default Now you can launch Image J and set the maximum memory to 1640 Mo with success well at least it works well for us Elvire Elvire Posts 5 Join date 2008 06 03 Location IFREMER Boulogne sur Mer France Re Problem to reach the Maximum Memory in Image J a solution ChangCY on Tue Jun 17 2008 5 09 am Still doesn t work on our Windows XP ChangCY Posts 6 Join

    Original URL path: http://zooscan.forumakers.com/t14-problem-to-reach-the-maximum-memory-in-image-j-a-solution (2016-02-14)
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  • Visualizing outlines of holes in objects (Area_exc)
    2008 10 15 pm There is now dedicated tool in Zooprocess to visualize the holes of the objects They cannot be outlined easily A solution is to use the Check process by viewing segmented images The segmented image displays the background and the HOLES in white and the objects in black The black pixels of an object will relate exacly with the number found in the Area exc parameter for that object If you want to do the check on vignettes it is also very easy to perform Open your vignette in ImageJ and apply the Image Adjust Threshold tool and set the threshold If you have extracted your image with gamma set to 1 you can apply the threshold value you have utilized for the image process Edit configuration file if not you may not be able to exactly see the holes because the image grey levels have been modified by the gamma process but you will anyhow get an idea picheral Posts 60 Join date 2008 05 02 Similar topics Similar topics How Click on Dynamic Objects at Dynamic Positions in Selenium using for loop Holes in Your Brain Caused by Migraine How Selenium identify OBIEE objects Flex

    Original URL path: http://zooscan.forumakers.com/t10-visualizing-outlines-of-holes-in-objects-area_exc (2016-02-14)
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  • Error message when selecting new+create new project
    ends Regards Ted ChangCY Posts 6 Join date 2008 05 29 Error when creating NEW project picheral on Sat May 31 2008 1 12 pm Dear Ted I know this problem which happens sometimes I could not fix it yet On our computers we just re start creating another project and it works Can you do that or does it abort all times Regards Marc P picheral Posts 60 Join

    Original URL path: http://zooscan.forumakers.com/t9-error-message-when-selecting-newcreate-new-project (2016-02-14)
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  • About re-processing images acquired with old versions
    some as 1 and some as 2 but they are both in the pid files Alison Posts 7 Join date 2008 05 05 Processing raw images picheral on Wed May 14 2008 5 03 pm Dear Alison What do you call raw images Again my question have they been saved in the raw folder by Zooprocess or in the zooscan scan folder In the first case you can use the standard conversion tool In the later you don t need to re process anything Can you make a copy of your monitor screen with Windows explorer opened and post it Regards Marc P Details opertaration performed For what purpose Problem encountered Copy of error messages picheral Posts 60 Join date 2008 05 02 Re About re processing images acquired with old versions Alison on Wed May 14 2008 8 24 pm I am using images from the raw folder I am attempting to batch process From the initial zooprocess screen I select my project and convert and process images and organisms in batch mode In the Process Converted Images box I choose convert and process image and particles images in raw folder as the select process option The image process works well However in the PID file for these images there are doublettes I noticed them when I extracted the images I am finding about 150 pairs of doublettes per 5000 or so thumbnails This is important because it changes the abundances of organisms I do not believe that this is a problem that I can fix I think that it is something that has to be changed within zooprocess Alison Posts 7 Join date 2008 05 05 About Doublettes called doubloons or duplicates picheral on Wed May 14 2008 11 10 pm Dear Alison The version 3 of Zooprocess automatically removed the duplicates tagged objects from the PID file of the frame 2 while they did remain in the MEAS txt files The later versions do not remove them because we now think that it is safer to keep all the data and it would be easy in MATLAB Excel R to sort on that criteria and remove them Zooprocess DO NOT extract vignettes of objects tagged 2 except bug It is thus normal to find duplicates in the PID files and they are tagged 2 in the last column of the files These duplicates should not be extracted in vignettes in any of the tools of Zooprocess Are your 150 pairs of organisms tagged 2 or not This is the important question to detect a bug Did Zooprocess extracted two vignettes for them one from each frame Can you check this in detail and tell me also which tool was used to extract the vignettes Hope this is a begining of answer I now understand better your problem Thank you Regards Marc P picheral Posts 60 Join date 2008 05 02 Re About re processing images acquired with old versions Alison on Thu May 15 2008 11 30

    Original URL path: http://zooscan.forumakers.com/t5-about-re-processing-images-acquired-with-old-versions (2016-02-14)
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  • ImageJ parameters
    thought that BX BY were the box But I am not suer as I tried to do this manually but it did not seem to work properly Answer Look at this web page http www obs vlfr fr LOV ZooPart ZooScan article php3 id article 51 Regards Marc P picheral Posts 60 Join date 2008 05 02 Similar topics Similar topics Help required with JavaScript and Selenese Parameter How could

    Original URL path: http://zooscan.forumakers.com/t6-imagej-parameters (2016-02-14)
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  • Statistics - rmlopes
    rmlopes Visitor messages Profile Statistics Contact Statistics Topics Number of topics 1 1 16 of total Topics per day 0 00 Latest topic Mon Aug 03 2009 10 39 pm Find all topics where rmlopes has posted in Posts Posts 4 2 04 of total Posts per day 0 00 Latest post Mon Aug 10 2009 8 59 pm Find all messages posted by rmlopes Visitor messages Visitor messages number

    Original URL path: http://zooscan.forumakers.com/u17stats (2016-02-14)
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  • Statistics - Korolla
    Viewing profile Korolla Visitor messages Profile Statistics Contact Statistics Topics Number of topics 1 1 16 of total Topics per day 0 00 Latest topic Thu Apr 23 2009 1 48 pm Find all topics where Korolla has posted in Posts Posts 1 0 51 of total Posts per day 0 00 Latest post Thu Apr 23 2009 1 48 pm Find all messages posted by Korolla Visitor messages Visitor

    Original URL path: http://zooscan.forumakers.com/u33stats (2016-02-14)
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