How to test upload images with your own sandbox » History » Version 5
Amber Herold, 10/01/2010 03:22 PM
1 | 1 | Amber Herold | h1. How to test upload images with your own sandbox |
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4 | Just had to do this so taking some notes: |
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6 | 5 | Amber Herold | h2. *the objective* |
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8 | 4 | Amber Herold | I have images that I want to upload located in my home directory. |
9 | 1 | Amber Herold | I want to use my sandbox on the web side of appion. |
10 | I want to use the wrapper/appion snapshot/beta appion for the python parts. However you want to call it, I just need a recent version. |
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11 | I want to upload the images to my own private database that is located on the fly server. |
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12 | When the images are uploaded, I want them stored in my home directory rather than on /ami/data00. |
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15 | 5 | Amber Herold | h2. *setup* |
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17 | h3. sinedon.cfg in home directory |
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19 | Make sure sinedon.cfg is in your home directory and the host, user and password correspond to your database. |
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20 | Make sure the projectdata and leginondata settings are set to the name of your db. |
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22 | h3. leginon.cfg in home directory |
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24 | Make sure leginon.cfg is in your home directory and the images path is set to a folder in your home directory. |
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26 | 5 | Amber Herold | h3. config.php located in your sandbox under myamiweb |
27 | 1 | Amber Herold | |
28 | 5 | Amber Herold | Make sure the database information matches what is found in sinedon.cfg. |
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30 | h2. *create the command* |
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32 | 1 | Amber Herold | * open myamiweb |
33 | Go to fly/~your_username/myamiweb which has been set up per the following instructions... |
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35 | * Go to or create a project for your images to be uploaded into. |
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36 | * make sure there is a database set for the project (ex. ap123) |
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37 | * click on [upload images to new session] |
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38 | * Under the _directory containing images_ field copy the path to the images on your home directory ex. /home/your_username/dir1/dir2 |
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39 | * Select _just show command_ |
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41 | 5 | Amber Herold | h2. *execute the command* |
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43 | Fly does not have the python parts installed. |
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44 | 3 | Amber Herold | Guppy does not have access to your home directory to get the images. |
45 | 2 | Amber Herold | |
46 | # ssh into amibox02 or amibox03 to run uploadimage.py |
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47 | # Copy and past the command that was provided by the web page into the terminal |
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48 | # Add the path to the wrapper installation to make sure you are executing the most recent version of the python code. |
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49 | This is probably /opt/myamisnap/bin/appion and it should be pre-pended to the command. |
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51 | example: |
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52 | <pre> |
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53 | /opt/myamisnap/bin/appion uploadImages.py --projectid=268 --image-dir=/home/amber/uploadedimages/pairedimages --mpix=1E-09 --type=defocalseries --images-per-series=2 --defocus-list=-1E-10,-2E-10 --mag=50000 --kv=120 --description="defocal test" --jobtype=uploadimage |
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54 | </pre> |