Difference between revisions of "Workstations EMBO 2016"
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Each participant can have their own ''Dynamo'' installation. The installation procedure needs to be performed only once during the workshop. | Each participant can have their own ''Dynamo'' installation. The installation procedure needs to be performed only once during the workshop. | ||
| − | Get the tarball from this [[https://drive.google.com/file/d/0B_T9apWxsZjMdTdfd1BFUFNBdkE/view?usp=sharing google drive location]] | + | Get the tarball (i.e., <tt>.tar</tt>file) from this [[https://drive.google.com/file/d/0B_T9apWxsZjMdTdfd1BFUFNBdkE/view?usp=sharing google drive location]] |
| − | We first create a location to install ''Dynamo'', for instance | + | We first create a location to install ''Dynamo'', for instance: |
<tt>mkdir /g/embo2016/cryo06/dynamo</tt> | <tt>mkdir /g/embo2016/cryo06/dynamo</tt> | ||
| − | and then untar the file onto the chosen location | + | and then untar (expand) the file onto the chosen location |
<tt>tar -xf <NAME OF THE TAR> -C /g/embo2016/cryo06/dynamo</tt> | <tt>tar -xf <NAME OF THE TAR> -C /g/embo2016/cryo06/dynamo</tt> | ||
Revision as of 12:26, 25 August 2016
Installing Dynamo
Each participant can have their own Dynamo installation. The installation procedure needs to be performed only once during the workshop.
Get the tarball (i.e., .tarfile) from this [google drive location]
We first create a location to install Dynamo, for instance:
mkdir /g/embo2016/cryo06/dynamo
and then untar (expand) the file onto the chosen location
tar -xf <NAME OF THE TAR> -C /g/embo2016/cryo06/dynamo
Activation
After installing the software, you'll need to activate it on each new shell in which you want to use it. Whenever you open a fresh shell, we need to ensure we have a fresh environment. This means, we need to overrule some default settings that are used by default in the course computers.
export PATH=/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/programs/share/bin
unalias dynamo
Before starting Dynamo, there is another environment variable that we need to tune: MCR_CACHE_ROOT
export MCR_CACHE_ROOT=~/tmp/
Now, you can activate Dynamo in the linux shell by running:
source /g/embo2016/cryo06/dynamo/tmp/dynamo_activate_linux_shipped_MCR.sh
This includes in the linux shell the paths that it needs to find both Dynamo and its libraries.
Running Dynamo
Now, you can just type in the terminal:
dynamo
which should open a standalone console, that can be used to enter Dynamo commands manually.
