Other articles


  1. Orthanc install

    Orthanc install on a NIX node

    Orthanc is a shareware DICOM server. For installation, the docker infrastructure is available.

    Docker install on debian

    So start with commands suggested by docker install guides:

    #unload old installation
    sudo apt-get remove docker docker-engine docker.io containerd runc
    sudo apt-get update
    #install requirements for …
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  2. PET diary

    OSU notes

    Changed threshold settings. Previous settings switched from 214 mV to 0 around DAC 195. New software runs without scaling factor, so

    DAC (old) DAC (new) THR (mV)
    137 180 156
    180 234 203

    I corrected the files in osu3D to reflect that. New reading is:

     <threshold>234</threshold …
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  3. Preparing Virtual Machine files for export

    Virtual machine export

    This entry reports on step taken to transfer virtual machine (VM) running on FMF server to a new host.

    Original setup

    On FMF, the virtual machine runs with virsh manager under XEN virtualization.

    Disk images

    First prepare dd dumps of the disks. In our case, a single …

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  4. NIX Certification Authority layout

    NIX access control layout

    The proposed implementation of NIX access control is a combination of Labkey and HTTPS/SSL access control utilities. At the bottom layer, the SSL certificates are used to identify user to the local Labkey nodes. Once admitted through this layer, the Labkey user privileges dictate accessiblity …

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  5. Read SAS files

    Read sas7bdat files

    Install required python packages:

    $>pip install sas7bdat
    $>pip install pandas
    

    Start python and import data to a pandas data frame:

    $>python
    >>>import sas7bdat
    >>>db=sas7bdat.SAS7BDAT('adlb.sas7bdat')
    >>>df=db.to_data_frame()
    
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  6. Openxpki

    Openxpki implementation on med1

    Setting up PKI implementation and web interface on med1. Openxpki was selected as it seemed to operate nicely within the openssl frame already used on med1, and provides a nice enough intefrace. The major issue seems to be stability - all similar projects (open-ca) suffer from limited …

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  7. Slicer batch dicom processing

    Batch dicom processing w/ Slicer

    Base on script from SlicerRT. Use DICOM implementation of DICOM parsing in python.

    Check attributes of a dicom object:

    dir(object)
    

    Find attributes that containt pattern:

    [x for x in dir(object) if x.find('pattern')>-1]
    

    Select a plugin and use examineForImport and load …

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