Ignore:
Timestamp:
05/14/10 17:49:08 (10 years ago)
Author:
curtis
Message:

Initial version of color mode selector. Not yet working.

File:
1 edited

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  • trunk/components/loci-plugins/src/loci/plugins/in/importer-options.txt

    r6296 r6322  
    3737default = true 
    3838 
    39 [colorize] 
    40 type = boolean 
    41 label = RGB_colorize channels 
    42 info = <b>RGB colorize channels</b> - \ 
    43   Each channel is assigned an appropriate pseudocolor table rather than the \ 
    44   normal grayscale.                                                         \ 
    45   <br><br>The first channel is colorized red, the second channel is green,  \ 
    46   and the third channel is blue. This option is not available when <b>Merge \ 
    47   channels to RGB</b> or <b>Custom colorize channels</b> are set. 
    48 default = true 
     39[colorMode] 
     40type = string 
     41label = Color_mode: 
     42info = <b>Color mode</b> - \ 
     43  Visualizes channels according to the specified scheme.                 \ 
     44  <br><br>Possible choices are:<ul>                                      \ 
     45  <li><b>Default</b> - Display channels as closely as possible           \ 
     46  to how they are stored in the file. For 8-bit indexed color,           \ 
     47  this is the only choice that will preserve the index values.</li>      \ 
     48  <li><b>Composite</b> - Open as a merged composite image. Channels are  \ 
     49  colorized according to metadata present in the dataset (if any),       \ 
     50  or in the following default order: 1=red, 2=green, 3=blue,             \ 
     51  4=gray, 5=cyan, 6=magenta, 7=yellow.</li>                              \ 
     52  <li><b>Colorized</b> - Open with each channel in a separate plane,     \ 
     53  colorized according to metadata present in the dataset (if any),       \ 
     54  or in the default order (see Composite above).</li>                    \ 
     55  <li><b>Grayscale</b> - Open with each channel in a separate plane,     \ 
     56  displayed in plain grayscale.</li>                                     \ 
     57  <li><b>Custom</b> - Same as Colorized, except that you                 \ 
     58  can explicitly choose how to colorize each channel.</li>               \ 
     59  </ul>                                                                  \ 
     60  Note that ImageJ can only composite together 7 or fewer channels.      \ 
     61  With more than 7 channels, Bio-Formats will ask how to split them up.  \ 
     62  For example, a 12-channel dataset could be partitioned as:<ul>         \ 
     63  <li>6 planes with 2 channels each</li>                                 \ 
     64  <li>4 planes with 3 channels each</li>                                 \ 
     65  <li>3 planes with 4 channels each</li>                                 \ 
     66  <li>3 planes with 5 channels each</li>                                 \ 
     67  <li>2 planes with 6 channels each</li>                                 \ 
     68  <li>2 planes with 7 channels each</li>                                 \ 
     69  </ul> 
     70default = Default 
     71values = \ 
     72  Default,   \ 
     73  Composite, \ 
     74  Colorized, \ 
     75  Grayscale, \ 
     76  Custom 
    4977 
    5078[concatenate] 
     
    6694  corner of the crop region and the width and height of the selection to \ 
    6795  be displayed, in pixels. 
    68 default = false 
    69  
    70 [customColorize] 
    71 type = boolean 
    72 label = Custom_colorize channels 
    73 info = <b>Custom colorize channels</b> - \ 
    74   Each channel is assigned a pseudocolor table rather than the normal \ 
    75   grayscale.<br><br>The color for each channel is chosen by the user. \ 
    76   This option is not available when <b>Merge channels to RGB</b> or   \ 
    77   <b>RGB colorize channels</b> are set. 
    7896default = false 
    7997 
     
    130148  Internet 
    131149 
    132 [mergeChannels] 
    133 type = boolean 
    134 label = Merge_channels to RGB 
    135 info = <b>Merge channels to RGB</b> - \ 
    136   A dataset with multiple channels will be opened and merged with       \ 
    137   channels pseudocolored in the order of the RGB color scheme; i.e.,    \ 
    138   channel 1 is red, channel 2 is green, and channel 3 is blue.          \ 
    139   <br><br>The bit depth will be preserved. If the dataset has more than \ 
    140   3 channels, Bio-Formats will ask how to combine them.                 \ 
    141   <br><br>For example, a 12-channel image could be combined into:<ul>   \ 
    142   <li>6 planes with 2 channels each (1st channel is red, 2nd is green)  \ 
    143   </li>                                                                 \ 
    144   <li>4 planes with 3 channels each (3rd channel is blue)</li>          \ 
    145   <li>3 planes with 4 channels each (4th channel is gray)</li>          \ 
    146   <li>3 planes with 5 channels each (5th channel is cyan)</li>          \ 
    147   <li>2 planes with 6 channels each (6th channel is magenta)</li>       \ 
    148   <li>2 planes with 7 channels each (7th channel is yellow)</li>        \ 
    149   </ul> 
    150 default = false 
    151  
    152 [mergeOption] 
    153 type = string 
    154 label = Merging channels per plane 
    155 default = Do not merge 
    156  
    157150[openAllSeries] 
    158151type = boolean 
     
    272265label = View stack with: 
    273266info = <b>View stack with</b> - \ 
    274   The type of image viewer to use when displaying the dataset.           \ 
    275   <br><br>Possible choices are:<ul>                                      \ 
    276   <li><b>Metadata only</b> - Display no pixels, only metadata.</li>      \ 
    277   <li><b>Hyperstack</b> - Display the pixels in ImageJ's                 \ 
    278   built-in 5D viewer.</li>                                               \ 
    279   <li><b>Data Browser</b> - Display the pixels in LOCI's                 \ 
    280   multidimensional Data Browser viewer. The Data Browser has some        \ 
    281   additional features on top of the normal ImageJ hyperstack.</li>       \ 
    282   <li><b>VisBio</b> - Not yet implemented.</li>                          \ 
    283   <li><b>Image5D</b> - Display the pixels in                             \ 
    284   Joachim Walter's Image5D viewer. Requires the Image5D plugin.</li>     \ 
    285   <li><b>View5D</b> - Display the pixels in                              \ 
    286   Rainer Heintzmann's View5D viewer. Requires the View5D plugin.</li>    \ 
     267  The type of image viewer to use when displaying the dataset.        \ 
     268  <br><br>Possible choices are:<ul>                                   \ 
     269  <li><b>Metadata only</b> - Display no pixels, only metadata.</li>   \ 
     270  <li><b>Hyperstack</b> - Display the pixels in ImageJ's              \ 
     271  built-in 5D viewer.</li>                                            \ 
     272  <li><b>Data Browser</b> - Display the pixels in LOCI's              \ 
     273  multidimensional Data Browser viewer. The Data Browser has some     \ 
     274  additional features on top of the normal ImageJ hyperstack.</li>    \ 
     275  <li><b>VisBio</b> - Not yet implemented.</li>                       \ 
     276  <li><b>Image5D</b> - Display the pixels in                          \ 
     277  Joachim Walter's Image5D viewer. Requires the Image5D plugin.</li>  \ 
     278  <li><b>View5D</b> - Display the pixels in                           \ 
     279  Rainer Heintzmann's View5D viewer. Requires the View5D plugin.</li> \ 
    287280  </ul> 
    288281default = Hyperstack 
     
    299292label = Stack_order: 
    300293info = <b>Stack order</b> - \ 
    301   Controls the rasterization order of the dataset's dimensional axes.   \ 
    302   <br><br>Unless you care about the order in which the image planes     \ 
    303   appear, you probably don't need to worry too much about this option.  \ 
    304   <br><br>By default, Bio-Formats reads the image planes in whatever    \ 
    305   order they are stored, which is format-dependent. However, several    \ 
    306   stack view modes require a specific rasterization order:<ul>          \ 
    307   <li>Hyperstacks must be in XYCZT order.</li>                          \ 
    308   <li>Image5D must be in XYCZT order.</li>                              \ 
    309   <li>View5D must be in XYCZT order.</li>                               \ 
    310   </ul><b>Example:</b> For a dataset in XYCZT order with 2 channels,    \ 
    311   3 focal planes and 5 time points, the order would be:<ol>             \ 
    312   <li>C1-Z1-T1</li>                                                     \ 
    313   <li>C2-Z1-T1</li>                                                     \ 
    314   <li>C1-Z2-T1</li>                                                     \ 
    315   <li>C2-Z2-T1</li>                                                     \ 
    316   <li>C1-Z3-T1</li>                                                     \ 
    317   <li>C2-Z3-T1</li>                                                     \ 
    318   <li>C1-Z1-T2</li>                                                     \ 
    319   <li>C2-Z1-T2</li>                                                     \ 
    320   <li>etc.</li>                                                         \ 
     294  Controls the rasterization order of the dataset's dimensional axes.  \ 
     295  <br><br>Unless you care about the order in which the image planes    \ 
     296  appear, you probably don't need to worry too much about this option. \ 
     297  <br><br>By default, Bio-Formats reads the image planes in whatever   \ 
     298  order they are stored, which is format-dependent. However, several   \ 
     299  stack view modes require a specific rasterization order:<ul>         \ 
     300  <li>Hyperstacks must be in XYCZT order.</li>                         \ 
     301  <li>Image5D must be in XYCZT order.</li>                             \ 
     302  <li>View5D must be in XYCZT order.</li>                              \ 
     303  </ul><b>Example:</b> For a dataset in XYCZT order with 2 channels,   \ 
     304  3 focal planes and 5 time points, the order would be:<ol>            \ 
     305  <li>C1-Z1-T1</li>                                                    \ 
     306  <li>C2-Z1-T1</li>                                                    \ 
     307  <li>C1-Z2-T1</li>                                                    \ 
     308  <li>C2-Z2-T1</li>                                                    \ 
     309  <li>C1-Z3-T1</li>                                                    \ 
     310  <li>C2-Z3-T1</li>                                                    \ 
     311  <li>C1-Z1-T2</li>                                                    \ 
     312  <li>C2-Z1-T2</li>                                                    \ 
     313  <li>etc.</li>                                                        \ 
    321314  </ol> 
    322315default = Default 
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