Installation on the microscope computer » History » Version 6
Amber Herold, 05/05/2010 10:38 AM
1 | 1 | Amber Herold | h1. Additional installation on the microscope computer |
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7 | The full leginon and its supporting packages need to be installed on the Windows computer |
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8 | controlling the microscope. Additional programs are required for communication with the CCD |
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9 | and extra functions for Tecnai scripting not supported as default by FEI Tecnai |
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10 | microscopes |
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14 | h2. Required supporting programs for the CCD camera from camera makers |
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18 | Install and register the following programs for CCD cameras from the two makes: |
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22 | |_.Camera Make:|_.File:| |
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23 | | Gatan|TecnaiCCD.dll| |
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24 | | Tietz|CAMC4.exe*| |
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27 | 5 | Amber Herold | *Note:* We have experienced slowness of the CAMC4.exe comes with later version Tecnai TUI/TIA. Replacing it with an earlier version of CAMC4.exe resolved the problem. |
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33 | h2. Additional Package required from NRAMM for Gatan camera or camera that uses TIA |
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37 | For Gatan Camera or FEI Eagle Camera that uses TIA, comarray package need to be install |
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38 | with python |
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42 | |_.SVN Package Name|_.Installed Python Package Name|_.Reason for update:| |
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43 | |comarray|comarray|com module output conversion to array| |
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50 | 6 | Amber Herold | * [[Windows installation#Check-out-SVN-Source-Files-from-the-depository|Check out the comarray package]] from svn |
51 | 1 | Amber Herold | depository with your SVN client |
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53 | <pre>cd Leginon-1.6-ALL |
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54 | svn co http://emg.nysbc.org/svn/comarray/branches/leg1.6 comarray</pre> |
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56 | * Start a command line Window from Start Menu |
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59 | * Install the package with commands such as |
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60 | <pre>cd Your_Download_Place\Leginon-1.6-ALL\comarray |
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61 | c:\\python25\python.exe setup.py install</pre> |
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71 | h2. Supporting programs for film exposure |
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75 | Install the following if you need film exposure on FEI Tecnai TEM through Leginon, |
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76 | available through FEI. Please contact Max Otten: <email>mto@feico.com</email> and request |
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77 | for adaexp.exe that works with your version of Tecnai user interface program. |
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81 | |_.Name:|_.File:| |
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82 | | exposure adaptor|adaexp.exe| |
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90 | h2. Register adaexep.exe |
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94 | * From the command prompt: |
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96 | <pre>adaexp.exe /regserver</pre> |
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98 | * From the program start menu under pyScope or |
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99 | C:\Python25\Lib\site-packages\pyScope\ |
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101 | <pre>updatecom.py</pre> |
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110 | h2. Modify instruments.cfg: |
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114 | Sinedon now have full control of database interaction, therefore, the database |
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115 | configuration in leginon.cfg is no longer needed. |
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120 | * Modify the file instruments.cfg in the installed pyScope directory to that for |
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121 | your microscope and camera. For example, if your microscope uses Tecnai Scripting |
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122 | Interface and you have a Gatan camera that you interface through |
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123 | DigitalMicrograph: |
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127 | <pre>[tem] |
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128 | class: tecnai.Tecnai |
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129 | [camera] |
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130 | class: gatan.Gatan</pre> |
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134 | The file contains other examples of microscope and camera drivers that we |
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135 | distribute from NRAMM. |
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145 | h2. Run updatecom.py |
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149 | From a command line window: |
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153 | <pre>cd C:\python25\Lib\Site-Packages\pyScope |
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154 | C:\python25\python.exe updatecom.py</pre> |
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158 | This should generate a few files, including tecnaicom.py, gatancom.py and tietzcom.py, |
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159 | in the same directory. |
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165 | h2. Additional setup on Tietz PXL camera (optional) |
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169 | The actual Tietz PXL camera dimension is slightly larger than 2048 x 2048. If you'd like |
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170 | to take the images using the maximum of 2048 x 2048 pixels, you may modify the function that |
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171 | get camera dimension in tietz.py of pyScope package. |
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174 | * Go to C:\Python25\Lib\site-packages\pyScope\ |
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177 | * Edit tietz.py with a plain text editor |
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180 | * Find the lines: |
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184 | <pre> def getCameraSize(self): |
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185 | # {'type': dict, 'values': {'x': {'type': int}, 'y': {'type': int}}}} |
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186 | x = self._getParameterValue('cpTotalDimensionX') |
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187 | y = self._getParameterValue('cpTotalDimensionY') |
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188 | return {'x': x, 'y': y} |
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189 | </pre> |
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193 | * Change the last line to: |
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197 | <pre> return {'x': 2048, 'y': 2048}</pre> |
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206 | h2. Additional Software (Optional): |
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209 | TightVNC (http://www.tightvnc.com) if you get tired of going into the microscope room |
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210 | just to open the column valves. |
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211 | 2 | Amber Herold | |
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213 | ______ |
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215 | [[Windows Installation|< Windows Installation]] | [[Next Steps|Next Steps >]] |
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216 | 3 | Amber Herold | |
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218 | ______ |