Changes between Version 21 and Version 22 of barSoftwareInstallation


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Timestamp:
08/31/11 16:18:53 (10 years ago)
Author:
pmajka
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  • barSoftwareInstallation

    v21 v22  
    1 //How to install 3d Brain Atlas Reconstructor on Ubuntu?// 
    2  
    31= 3d Brain Atlas Reconstructor Installation (Ubuntu) = 
    42 
     
    9492    * atlases/DATASET_NAME/reconstructions : The directory for reconstructed models. 
    9593 
    96 == Initial build == 
    97 === Documentation === 
    98 In order to generate documentation execute: 
    99 {{{ 
    100 make doc 
    101 }}} 
    102  
    103 The documentation for API can be viewed by opening '~/3dbar/doc/api/html/index.html' 
    104 and the documentation for 3dBAR graphic interface can be viewed by opening 
    105 '~/3dbar/doc/gui/html/index.html'. 
    106  
    107 === CAF datasets === 
    108 ==== sba_DB08 ==== 
    109 In order to generate CAF dataset sba_DB08 execute: 
    110 {{{ 
    111 source setbarenv.sh 
    112 make sba_DB08 
    113 }}} 
    114  
    115 Generated dataset can be found in '~/3dbar/atlases/sba_DB08/caf/' directory. 
    116  
    117 ==== sba_PHT00 ==== 
    118 In order to generate CAF dataset sba_PHT00 execute: 
    119 {{{ 
    120 source setbarenv.sh 
    121 make sba_PHT00 
    122 }}} 
    123  
    124 Generated dataset can be found in '~/3dbar/atlases/sba_PHT00/caf/' directory. 
    125  
    126 ==== sba_WHS09 ==== 
    127 In order to generate CAF dataset sba_WHS09 execute: 
    128 {{{ 
    129 source setbarenv.sh 
    130 make sba_WHS09 
    131 }}} 
    132  
    133 Generated dataset can be found in '~/3dbar/atlases/sba_WHS09/caf/' directory. 
    134  
    135 ==== sba_WHS10 ==== 
    136 In order to generate CAF dataset sba_WHS10 execute: 
    137 {{{ 
    138 source setbarenv.sh 
    139 make sba_WHS10 
    140 }}} 
    141  
    142 Generated dataset can be found in '~/3dbar/atlases/sba_WHS10/caf/' directory. 
    143  
    144 ==== sba_RM_on_F99 ==== 
    145 In order to generate CAF dataset sba_RM_on_F99 execute: 
    146 {{{ 
    147 source setbarenv.sh 
    148 make sba_RM_on_F99 
    149 }}} 
    150  
    151 Generated dataset can be found in '~/3dbar/atlases/sba_RM_on_F99/caf/' directory. 
    152  
    153 ==== sba_LPBA40_on_SRI24 ==== 
    154 In order to generate CAF dataset sba_LPBA40_on_SRI24 execute: 
    155 {{{ 
    156 source setbarenv.sh 
    157 make sba_LPBA40_on_SRI24 
    158 }}} 
    159  
    160 Generated dataset can be found in '~/3dbar/atlases/sba_LPBA40_on_SRI24/caf/' directory. 
    161  
    162 ==== whs_0.5 ==== 
    163 In order to generate CAF dataset whs_0.5 execute: 
    164 {{{ 
    165 source setbarenv.sh 
    166 make whs_0.5 
    167 }}} 
    168  
    169 Generated dataset can be found in '~/3dbar/atlases/whs_0.5/caf/' directory. 
    170  
    171 ==== whs_0.51 ==== 
    172 In order to generate CAF dataset whs_0.51 execute: 
    173 {{{ 
    174 source setbarenv.sh 
    175 make whs_0.51 
    176 }}} 
    177  
    178 Generated dataset can be found in '~/3dbar/atlases/whs_0.51/caf/' directory. 
    179  
    180  
    181 == Testing the 3dBAR GUI == 
    182 Once you have a CAF dataset created you can test the GUI for structure creation. 
    183 To do it in '~/3dbar' directory run: 
    184 {{{ 
    185 ./3dbar.sh 
    186 }}} 
    187 and choose in the menu //Atlas/Open// and select 'index.xml' file of chosen CAF dataset. 
    188  
    189 To test, click the topmost label on the tree in the left panel and press 
    190 'Perform reconstruction' button in the right panel. The reconstruction process 
    191 will start. When it is finished, choose in the menu //Edit/Save Model//. It allows 
    192 you to put it later in context by right click on the ontology tree. 
    193  
    194 {{{#!comment 
    195 == Initial build == 
    196 In order create initial CAF datasets, generate documentation use following command in /home/$USERNAME/3dbar/ directory: 
    197 {{{ 
    198 make -B -j N all 
    199 }}} 
    200  
    201 where N is number of parallel processes You want to use. If everything is installed correctly processing should be performed without any errors. Then 3dBAR GUI should be launched 
    202 {{{ 
    203 ./3dbar.sh 
    204 }}} 
    205 and used to perform reconstructions. If everything went fine, You may proceed to : 
    206  
    207  
    208 == Getting parsers for additional datasets == 
    209 }}} 
     94Then [wiki:barSoftwareInitialBuild check ] if the installation was successful. 
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